Python package for extracting representations from state-of-the-art computer vision models

Harmonizing the object recognition strategies of deep neural networks with humans

THINGSvision: A Python Toolbox for Streamlining the Extraction of Activations From Deep Neural Networks

An overview of open source Deep Learning-based libraries for Neuroscience

Fine-grained knowledge about manipulable objects is well-predicted by CLIP


The Official PyTorch Implementation of "LSGM: Score-based Generative Modeling in Latent Space" (NeurIPS 2021)

NVAE: A Deep Hierarchical Variational Autoencoder

A Comprehensive Survey of AI-Generated Content (AIGC): A History of Generative AI from GAN to ChatGPT

DiffuseVAE: Efficient, Controllable and High-Fidelity Generation from Low-Dimensional Latents

Refining Generative Process with Discriminator Guidance in Score-based Diffusion Models

Exposing flaws of generative model evaluation metrics and their unfair treatment of diffusion models

Improving the Effectiveness of Deep Generative Data


Code for the paper, "Learning Human Objectives by Evaluating Hypothetical Behavior"

Reward learning from human preferences and demonstrations in Atari

Scalable agent alignment via reward modeling: a research direction


astromonical fits image for python matplotlib

K2 Rotation Periods for Low-mass Hyads and a Quantitative Comparison of the Distribution of Slow Rotators in the Hyades and Praesepe

Poking the Beehive from Space: K2 Rotation Periods for Praesepe

K2 ROTATION PERIODS FOR LOW-MASS HYADS AND THE IMPLICATIONS FOR GYROCHRONOLOGY


Instruction Tuning with GPT-4

Instruction Tuning for Large Language Models: A Survey

Unnatural Instructions: Tuning Language Models with (Almost) No Human Labor

MUFFIN: Curating Multi-Faceted Instructions for Improving Instruction-Following


Code for 'Leveraging the Feature Distribution in Transfer-based Few-Shot Learning'

Manifold Mixup: Better Representations by Interpolating Hidden States

Charting the Right Manifold: Manifold Mixup for Few-shot Learning

SimpleShot: Revisiting Nearest-Neighbor Classification for Few-Shot Learning

Iterative label cleaning for transductive and semi-supervised few-shot learning

EASY: Ensemble Augmented-Shot Y-shaped Learning: State-Of-The-Art Few-Shot Classification with Simple Ingredients

Improving Classification Accuracy with Graph Filtering


HOPS - A user-friendly software for single-object photometry and exoplanet light-curve modelling

ExoClock Project. II. A Large-scale Integrated Study with 180 Updated Exoplanet Ephemerides

ExoClock project: an open platform for monitoring the ephemerides of Ariel targets with contributions from the public

Original Research by Young Twinkle Students (ORBYTS): ephemeris refinement of transiting exoplanets

Original Research By Young Twinkle Students (ORBYTS): Ephemeris Refinement of Transiting Exoplanets III

Astronomy Theory, Observations & Methods


Protein sequence classification with self-supervised pretraining

UDSMProt: universal deep sequence models for protein classification

Pretraining model for biological sequence data

USMPep: universal sequence models for major histocompatibility complex binding affinity prediction


Implementation of the mixup training method

mixup: Beyond Empirical Risk Minimization

On Mixup Training: Improved Calibration and Predictive Uncertainty for Deep Neural Networks

DoubleMix: Simple Interpolation-Based Data Augmentation for Text Classification

Synthetic vs Real: Deep Learning on Controlled Noise


This is a TensorFlow implementation of the Adversarially Regularized Graph Autoencoder(ARGA) model as described in our paper:   Pan, S., Hu, R., Long, G., Jiang, J., Yao, L., & Zhang, C. (2018). Adversarially Regularized Graph Autoencoder for Graph Embedding, [https://www.ijcai.org/proceedings/2018/0362.pdf].

A Comprehensive Survey on Graph Neural Networks

IEEE transactions on neural networks and learning systems

Deep Learning on Graphs: A Survey

Graph Self-Supervised Learning: A Survey

A Comprehensive Survey on Community Detection With Deep Learning

Graph-based Semi-supervised Learning: A Comprehensive Review

Dual Information Enhanced Multi-view Attributed Graph Clustering


Implementation for paper "A Consciousness-Inspired Planning Agent for Model-Based Reinforcement Learning".

A Look at Value-Based Decision-Time vs. Background Planning Methods Across Different Settings

Minimal Value-Equivalent Partial Models for Scalable and Robust Planning in Lifelong Reinforcement Learning

Boolean Decision Rules for Reinforcement Learning Policy Summarisation


PEGASUS: Pre-training with Extracted Gap-sentences for Abstractive Summarization

ETC: Encoding Long and Structured Inputs in Transformers

LongT5: Efficient Text-To-Text Transformer for Long Sequences

A Real-World WebAgent with Planning, Long Context Understanding, and Program Synthesis

Make Every Example Count: On the Stability and Utility of Self-Influence for Learning from Noisy NLP Datasets

mLongT5: A Multilingual and Efficient Text-To-Text Transformer for Longer Sequences

ALens: An Adaptive Domain-Oriented Abstract Writing Training Tool for Novice Researchers


Adds SPICE metric to coco-caption evaluation server codes

CIDEr: Consensus-based Image Description Evaluation

Microsoft COCO Captions: Data Collection and Evaluation Server

Recurrent Fusion Network for Image Captioning

Neural Wikipedian: Generating Textual Summaries from Knowledge Base Triples

COMIC: Toward A Compact Image Captioning Model With Attention


The ACCEPT image analysis algorithm made for the Cancer-ID Project.

Circulating tumor cells in advanced non-small cell lung cancer patients are associated with worse tumor response to checkpoint inhibitors

Tumour-derived extracellular vesicles in blood of metastatic cancer patients associate with overall survival

Prognostic Significance of Gene Expression and DNA Methylation Markers in Circulating Tumor Cells and Paired Plasma Derived Exosomes in Metastatic Castration Resistant Prostate Cancer

Classification of Cells in CTC-Enriched Samples by Advanced Image Analysis

How to Agree on a CTC: Evaluating the Consensus in Circulating Tumor Cell Scoring

Cytometry. Part A : the journal of the International Society for Analytical Cytology

HER2 expression on tumor-derived extracellular vesicles and circulating tumor cells in metastatic breast cancer

Scanning Electron Microscopy of Circulating Tumor Cells and Tumor-Derived Extracellular Vesicles

Quantifying HER-2 expression on circulating tumor cells by ACCEPT

Leukocyte-Derived Extracellular Vesicles in Blood with and without EpCAM Enrichment

EPAC-lung: European pooled analysis of the prognostic value of circulating tumour cells in small cell lung cancer


Tensorflow-DenseNet with ImageNet Pretrained Models

Densely Connected Convolutional Networks

Is Robustness the Cost of Accuracy? -- A Comprehensive Study on the Robustness of 18 Deep Image Classification Models

CIA-Net: Robust Nuclei Instance Segmentation with Contour-aware Information Aggregation

Same, Same But Different - Recovering Neural Network Quantization Error Through Weight Factorization

Mitigating dataset harms requires stewardship: Lessons from 1000 papers

Classification Efficiency of Pre-Trained Deep CNN Models on Camera Trap Images

ON EXTENSIONS OF CLEVER: A NEURAL NETWORK ROBUSTNESS EVALUATION ALGORITHM

Learning to Play the Chess Variant Crazyhouse Above World Champion Level With Deep Neural Networks and Human Data

Training Meta-Surrogate Model for Transferable Adversarial Attack

Secure Medical Image Analysis with CrypTFlow


Implementation of the paper "Adversarial Attacks on Neural Networks for Graph Data".

Deep Learning on Graphs: A Survey

Adversarial Attack and Defense on Graph Data: A Survey

Adversarial Attacks and Defenses on Graphs: A Review and Empirical Study

Are Defenses for Graph Neural Networks Robust?

Graph Sanitation with Application to Node Classification

Efficient, Direct, and Restricted Black-Box Graph Evasion Attacks to Any-Layer Graph Neural Networks via Influence Function

Topological Effects on Attacks Against Vertex Classification


This is Research Artifact for DevGPT Dataset

DevGPT: Studying Developer-ChatGPT Conversations

An Empirical Study on Developers Shared Conversations with ChatGPT in
  GitHub Pull Requests and Issues


Tool for the extraction and mapping of photovoltaics modules from IR drone videos of utility-scale PV plants (my PhD project)

Computer vision tool for detection, mapping, and fault classification of photovoltaics modules in aerial IR videos

Anomaly detection in IR images of PV modules using supervised contrastive learning

Georeferencing of photovoltaic modules from aerial infrared videos using structure‐from‐motion


Implementation for the paper "Hierarchical Conditional Relation Networks for Video Question Answering" (Le et al., CVPR 2020, Oral)

Hierarchical Conditional Relation Networks for Multimodal Video Question Answering

CRIPP-VQA: Counterfactual Reasoning about Implicit Physical Properties via Video Question Answering


Pytorch implementation of “Recursive Non-Autoregressive Graph-to-Graph Transformer for Dependency Parsing with Iterative Refinement”

Deep Biaffine Attention for Neural Dependency Parsing

75 Languages, 1 Model: Parsing Universal Dependencies Universally

A Survey on Non-Autoregressive Generation for Neural Machine Translation and Beyond

Transactions of the Association for Computational Linguistics

Graph Refinement for Coreference Resolution

Transformers as Graph-to-Graph Models


Stefan Engblom's Matlab libraries

A new generation 99 line Matlab code for compliance topology optimization and its extension to 3D

Topology optimization with linearized buckling criteria in 250 lines of Matlab

An efficient and easy-to-extend Matlab code of the Moving Morphable Component (MMC) method for three-dimensional topology optimization

Structural and Multidisciplinary Optimization


QC-DMET: a python implementation of density matrix embedding theory for ab initio quantum chemistry

A Practical Guide to Density Matrix Embedding Theory in Quantum Chemistry

Journal of chemical theory and computation

Multiconfigurational Self-Consistent Field Theory with Density Matrix Embedding: The Localized Active Space Self-Consistent Field Method

Can Density Matrix Embedding Theory with the Complete Activate Space Self-Consistent Field Solver Describe Single and Double Bond Breaking in Molecular Systems?


A Tensorflow implementation of the Text Conditioned Auxiliary Classifier Generative Adversarial Network for Generating Images from text descriptions (https://arxiv.org/abs/1703.06412)

Conditional Image Synthesis With Auxiliary Classifier GANs

Skip-Thought Vectors

TAC-GAN - Text Conditioned Auxiliary Classifier Generative Adversarial Network


Learning to Perform Local Rewriting for Combinatorial Optimization

Learning to Delegate for Large-scale Vehicle Routing

Optimizing Nurse Scheduling: A Supply Chain Approach for Healthcare Institutions


Learning Graph Models for Retrosynthesis Prediction

RetroXpert: Decompose Retrosynthesis Prediction Like A Chemist

Energy-based View of Retrosynthesis

��^2���������� as a Two-Step Graph Generative Models for Retrosynthesis Prediction

Modern Hopfield Networks for Few- and Zero-Shot Reaction Template Prediction

RetroComposer: Composing Templates for Template-Based Retrosynthesis Prediction

MARS: A Motif-based Autoregressive Model for Retrosynthesis Prediction


Deep Code Comment Generation

International Conference on Program Comprehension

Automating string processing in spreadsheets using input-output examples

Symposium on Principles of Programming Languages

Code completion with statistical language models

Programming Language Design and Implementation

Deep Learning Code Fragments for Code Clone Detection

Zenodo (CERN European Organization for Nuclear Research)

Deep Code Search

PROCEEDINGS 2018 IEEE/ACM 40TH INTERNATIONAL CONFERENCE ON SOFTWARE ENGINEERING (ICSE)

Predicting Program Properties from "Big Code"

Toward Deep Learning Software Repositories

DeepSim: deep learning code functional similarity

Probabilistic model for code with decision trees

Conference on Object-Oriented Programming Systems, Languages, and Applications

Learning to optimize halide with tree search and random programs


This page is for A Survey on Deep Learning of Small Sample in Biomedical Image Analysis.

Constrained-CNN losses for weakly supervised segmentation

CFEA: Collaborative Feature Ensembling Adaptation for Domain Adaptation in Unsupervised Optic Disc and Cup Segmentation


Generalised Lomb-Scargle periodogram

Carolina Digital Repository (University of North Carolina at Chapel Hill)

The CARMENES search for exoplanets around M dwarfs. Two temperate Earth-mass planet candidates around Teegarden's Star

e-Archivo (Universidad Carlos III de Madrid)

TOI-3714 b and TOI-3629 b: Two Gas Giants Transiting M Dwarfs Confirmed with the Habitable-zone Planet Finder and NEID

HD 191939 revisited: New and refined planet mass determinations, and a new planet in the habitable zone

A close-in giant planet escapes engulfment by its star

Two super-Earths at the edge of the habitable zone of the nearby M dwarf TOI-2095

TOI-3984 A b and TOI-5293 A b: Two Temperate Gas Giants Transiting Mid-M Dwarfs in Wide Binary Systems

Radio emission in a nearby, ultra-cool dwarf binary: A multifrequency study

Mid-infrared time-domain study of recent dust production events in the extreme debris disc of TYC 4209-1322-1

Monthly notices of the Royal Astronomical Society

CARMENES input catalog of M dwarfs: VII. New rotation periods for the survey stars and their correlations with stellar activity


Identify genes with spatial expression trends in single-cell gene expression data

Identification of spatial expression trends in single-cell gene expression data

Clinical and translational values of spatial transcriptomics

Signal transduction and targeted therapy

Spatial omics: Navigating to the golden era of cancer research

Analysis and Visualization of Spatial Transcriptomic Data

Schema: metric learning enables interpretable synthesis of heterogeneous single-cell modalities

Computational elucidation of spatial gene expression variation from spatially resolved transcriptomics data

A selective review of recent developments in spatially variable gene detection for spatial transcriptomics


Knowledge Graph Reasoning with Relational Digraph. WebConf 2022

Inductive Relation Prediction by Subgraph Reasoning

ASGEA: Exploiting Logic Rules from Align-Subgraphs for Entity Alignment


Automated Scalable Bayesian Inference

Coresets for Scalable Bayesian Logistic Regression

Bayesian Coreset Construction via Greedy Iterative Geodesic Ascent

Automated Scalable Bayesian Inference via Hilbert Coresets

Introduction to Core-sets: an Updated Survey

Continuous Regularized Wasserstein Barycenters

Sparse Variational Inference: Bayesian Coresets from Scratch

Assembly of a Coreset of Earth Observation Images on a Small Quantum Computer

Analyzing and Storing Network Intrusion Detection Data using Bayesian Coresets: A Preliminary Study in Offline and Streaming Settings

Coreset Markov Chain Monte Carlo


【CVPR2020, Interpretable Network】A Model-driven Deep Neural Network  for Single Image Rain Removal

Not Just Streaks: Towards Ground Truth for Single Image Deraining

Networks are Slacking Off: Understanding Generalization Problem in Image Deraining


A curated list of resources on document similarity measures (papers, tutorials, code, ...)

Learning Fine-grained Image Similarity with Deep Ranking

Learning to Rank Short Text Pairs with Convolutional Deep Neural Networks

SIGIR 2015: PROCEEDINGS OF THE 38TH INTERNATIONAL ACM SIGIR CONFERENCE ON RESEARCH AND DEVELOPMENT IN INFORMATION RETRIEVAL

Content-Based Recommender Systems

Reliability quality measures for recommender systems

Using Crowdsourcing to Investigate Perception of Narrative Similarity

International Conference on Information and Knowledge Management

Evaluating the CC-IDF citation-weighting scheme: How effectively can ‘Inverse Document Frequency’ (IDF) be applied to references?

ERCNN: Enhanced Recurrent Convolutional Neural Networks for Learning Sentence Similarity


Access data from Thalmic Labs' Myo Gesture Control Armband in m-code!

User-Independent Hand Gesture Recognition Classification Models Using Sensor Fusion

sEMG-Based Gesture Classifier for a Rehabilitation Glove

Adaptive Driver-Automation Shared Steering Control via Forearm Surface Electromyography Measurement

Effect of Fixed and sEMG-Based Adaptive Shared Steering Control on Distracted Driver Behavior


IEEE/ACM TASLP 2020: SBERT-WK: A Sentence Embedding Method By  Dissecting BERT-based Word Models

BERT: Pre-training of Deep Bidirectional Transformers for Language Understanding

Sentence-BERT: Sentence Embeddings using Siamese BERT-Networks

SBERT-WK: A Sentence Embedding Method by Dissecting BERT-Based Word Models

Team Alex at CLEF CheckThat! 2020: Identifying Check-Worthy Tweets With Transformer Models

Investigating Active Learning in Interactive Neural Machine Translation


Implementation of the Capsule-Forensics-v2

Celeb-DF: A Large-scale Challenging Dataset for DeepFake Forensics

Capsule-Forensics: Using Capsule Networks to Detect Forged Images and Videos

Use of a Capsule Network to Detect Fake Images and Videos

DeepFakes Evolution: Analysis of Facial Regions and Fake Detection Performance

DeepfakeBench: A Comprehensive Benchmark of Deepfake Detection

DeepFake-o-meter: An Open Platform for DeepFake Detection

Robust Deepfake On Unrestricted Media: Generation And Detection


Fully automated Gaussian decomposition package for emission line spectra

Ubiquitous velocity fluctuations throughout the molecular interstellar medium

GAUSSPY+: A fully automated Gaussian decomposition package for emission line spectra

Extracting the Cold Neutral Medium from HiEmission with Deep Learning: Implications for Galactic Foregrounds at High Latitude

The "Maggie" filament: Physical properties of a giant atomic cloud.


Adaptive Neural Trees

Deep Residual Learning for Image Recognition

Adaptive Neural Trees

Dive into Decision Trees and Forests: A Theoretical Demonstration


Learning to query complex networks

Embedding Logical Queries on Knowledge Graphs

SE‐KGE: A location‐aware Knowledge Graph Embedding model for Geographic Question Answering and Spatial Semantic Lifting

Message Passing Query Embedding

Contextual Graph Attention for Answering Logical Queries over Incomplete Knowledge Graphs

PROCEEDINGS OF THE 10TH INTERNATIONAL CONFERENCE ON KNOWLEDGE CAPTURE (K-CAP '19)


abawaca is a binning program for metagenomics

Recovering complete and draft population genomes from metagenome datasets

Bacterial Secondary Metabolite Biosynthetic Potential in Soil Varies with Phylum, Depth, and Vegetation Type

RubisCO of a nucleoside pathway known from Archaea is found in diverse uncultivated phyla in bacteria

Unusual respiratory capacity and nitrogen metabolism in a Parcubacterium (OD1) of the Candidate Phyla Radiation

Stable-Isotope-Informed, Genome-Resolved Metagenomics Uncovers Potential Cross-Kingdom Interactions in Rhizosphere Soil

Depth-related variability in viral communities in highly stratified sulfidic mine tailings

Viruses interact with hosts that span distantly related microbial domains in dense hydrothermal mats

Microbial Hotspots in Lithic Microhabitats Inferred from DNA Fractionation and Metagenomics in the Atacama Desert

Protein Family Content Uncovers Lineage Relationships and Bacterial Pathway Maintenance Mechanisms in DPANN Archaea

Genome-resolved metagenomics using environmental and clinical samples


Transformation Networks for Target-Oriented Sentiment Classification (ACL 2018)

A Unified Model for Opinion Target Extraction and Target Sentiment Prediction

Open-Domain Targeted Sentiment Analysis via Span-Based Extraction and Classification

DOER: Dual Cross-Shared RNN for Aspect Term-Polarity Co-Extraction

Enhanced Aspect-Based Sentiment Analysis Models with Progressive Self-supervised Attention Learning

Target-Guided Structured Attention Network for Target-Dependent Sentiment Analysis


The source code used for self-supervised taxonomy expansion method TaxoExpan, published in WWW 2020

TaxoExpan: Self-supervised Taxonomy Expansion with Position-Enhanced Graph Neural Network

WEB CONFERENCE 2020: PROCEEDINGS OF THE WORLD WIDE WEB CONFERENCE (WWW 2020)

STEAM: Self-Supervised Taxonomy Expansion with Mini-Paths

Who Should Go First? A Self-Supervised Concept Sorting Model for Improving Taxonomy Expansion

Ontology Enrichment from Texts: A Biomedical Dataset for Concept Discovery and Placement


PyTorch implementation of BEVT (CVPR 2022) https://arxiv.org/abs/2112.01529

Zero-Shot Text-to-Image Generation

PeCo: Perceptual Codebook for BERT Pre-training of Vision Transformers

BEVT: BERT Pretraining of Video Transformers


A pipeline for isoseq

A global survey of alternative splicing in allopolyploid cotton: landscape, complexity and regulation.

Maternal effects shape the alternative splicing of parental alleles in reciprocal cross hybrids of Megalobrama amblycephala x Culter alburnus

Unveiling the Complexity of Red Clover (Trifolium pratense L.) Transcriptome and Transcriptional Regulation of Isoflavonoid Biosynthesis Using Integrated Long- and Short-Read RNAseq

International journal of molecular sciences


Fre-GAN: Adversarial Frequency-consistent Audio Synthesis

KaraTuner: Towards end to end natural pitch correction for singing voice in karaoke


ICLR 2024 | Fully Hyperbolic Convolutional Neural Networks for Computer Vision | Official Implementation

Improved Regularization of Convolutional Neural Networks with Cutout

Clipped Hyperbolic Classifiers Are Super-Hyperbolic Classifiers


DeepCRISPR: optimized CRISPR guide RNA design by deep learning

C-RNNCrispr: Prediction of CRISPR/Cas9 sgRNA activity using convolutional and recurrent neural networks

Computational and structural biotechnology journal

A Novel Hybrid CNN-SVR for CRISPR/Cas9 Guide RNA Activity Prediction


Testing Nerual Tangent Kernel (NTK) on small UCI datasets

Harnessing the Power of Infinitely Wide Deep Nets on Small-data Tasks

On the Similarity between the Laplace and Neural Tangent Kernels

Mechanism of feature learning in deep fully connected networks and kernel machines that recursively learn features

Global Convergence and Generalization Bound of Gradient-Based Meta-Learning with Deep Neural Nets

A Neural Tangent Kernel Perspective of Infinite Tree Ensembles

Near-Interpolators: Rapid Norm Growth and the Trade-Off between
  Interpolation and Generalization


Gas Reliability Analysis Integrated Library: algorithms for natural gas pipeline optimization, optimal control, and simulation

An Uncertainty Management Framework for Integrated Gas-Electric Energy Systems

Stochastic Hybrid Approximation for Uncertainty Management in Gas-Electric Systems

Linear System Analysis and Optimal Control of Natural Gas Dynamics in Pipeline Networks


Official Implementation of Early-Learning Regularization Prevents Memorization of Noisy Labels

Adaptive Early-Learning Correction for Segmentation from Noisy Annotations

FINE Samples for Learning with Noisy Labels

Label Noise-Robust Learning using a Confidence-Based Sieving Strategy


Places205-VGGNet models for scene recognition

Places205-VGGNet Models for Scene Recognition

Better Exploiting OS-CNNs for Better Event Recognition in Images

Collaborative Layer-wise Discriminative Learning in Deep Neural Networks


MOsaic CHromosomal Alterations (MoChA) caller

Insights into clonal haematopoiesis from 8,342 mosaic chromosomal alterations

Monogenic and polygenic inheritance become instruments for clonal selection

Chromosomal alterations among age-related haematopoietic clones in Japan

Rawcopy: Improved copy number analysis with Affymetrix arrays

Large mosaic copy number variations confer autism risk

Mosaic chromosome Y loss is associated with alterations in blood cell counts in UK Biobank men

Hematopoietic mosaic chromosomal alterations and risk for infection among 767,891 individuals without blood cancer

medRxiv : the preprint server for health sciences

Integrating Genetic Structural Variations and Whole-Genome Sequencing Into Clinical Neurology

Biological insights from the whole genome analysis of human embryonic stem cells

MONTAGE: a new tool for high-throughput detection of mosaic copy number variation


SDNet

SDNet: Contextualized Attention-based Deep Network for Conversational Question Answering

Conversational Machine Comprehension: a Literature Review

International Conference on Computational Linguistics

Do not let the history haunt you -- Mitigating Compounding Errors in Conversational Question Answering


Pseudo-spectral Python code to compute ultralight dark matter dynamics.

Simulating mixed fuzzy and cold dark matter

PyUltraLight: a pseudo-spectral solver for ultralight dark matter dynamics

Journal of Cosmology and Astroparticle Physics

Single and merger soliton dynamics in scalar field dark matter with and
  without self-interactions


BioMedICUS: A biomedical and clinical NLP engine.

Social and Behavioral Determinants of Health in the Era of Artificial Intelligence with Electronic Health Records: A Scoping Review

Deep Learning Approaches for Extracting Adverse Events and Indications of Dietary Supplements from Clinical Text

Journal of the American Medical Informatics Association : JAMIA

Extracting Lifestyle Factors for Alzheimer's Disease from Clinical Notes Using Deep Learning with Weak Supervision

Named Entity Recognition in Prehospital Trauma Care

World Congress on Medical and Health Informatics, Medinfo

Usability Evaluation of an Unstructured Clinical Document Query Tool for Researchers.


Open Data Commons Open Database License v1.0

Intrinsic evaluation of word vectors

Evaluating word embedding models: methods and experimental results

APSIPA Transactions on Signal and Information Processing

Evaluation of Word Vector Representations by Subspace Alignment

Empirical Methods in Natural Language Processing

Morphological Priors for Probabilistic Neural Word Embeddings

Correlation-based Intrinsic Evaluation of Word Vector Representations

Relational Word Embeddings

What Do Self-Supervised Speech Models Know About Words?

Cross-Lingual Syntactically Informed Distributed Word Representations

Conference of the European Chapter of the Association for Computational Linguistics

Explaining Word Embeddings via Disentangled Representation

International Joint Conference on Natural Language Processing


Leading Eigenvector Dynamics Analysis

Cognitive performance in healthy older adults relates to spontaneous switching between states of functional connectivity during rest

Optimized Multiscale Entropy Model Based on Resting-State fMRI for Appraising Cognitive Performance in Healthy Elderly

Computational and mathematical methods in medicine

Neuropeptide Y Variation Is Associated With Altered Static and Dynamic Functional Connectivity of the Salience Network


Converts raw cadence target data from the Kepler space telescope into astronomer-friendly FITS files.

K2 Observations of SN 2018oh Reveal a Two-Component Rising Light Curve for a Type Ia Supernova

K2-136: A Binary System in the Hyades Cluster Hosting a Neptune-sized Planet

Sixty Validated Planets from K2 Campaigns 5–8

The discovery of WASP-151b, WASP-153b, WASP-156b: Insights on giant planet migration and the upper boundary of the Neptunian desert

Photodynamical analysis of the triply eclipsing hierarchical triple system EPIC 249432662

Monthly notices of the Royal Astronomical Society

Planetary Candidates from K2 Campaign 16

Three Small Planets Transiting the Bright Young Field Star K2-233

A TESS Dress Rehearsal: Planetary Candidates and Variables from K2 Campaign 17

The Astrophysical Journal Supplement Series

The Random Transiter – EPIC 249706694/HD 139139

Another Superdense Sub-Neptune in K2-182 b and Refined Mass Measurements for K2-199 b and c


Partially Adaptive Momentum Estimation method in the paper "Closing the Generalization Gap of Adaptive Gradient Methods in Training Deep Neural Networks" (accepted by IJCAI 2020)

Deep Residual Learning for Image Recognition

Very Deep Convolutional Networks for Large-Scale Image Recognition

Wide Residual Networks

ICLR Reproducibility Challenge Report (Padam : Closing The Generalization Gap Of Adaptive Gradient Methods in Training Deep Neural Networks)


Guided Flows for Generative Modeling and Decision Making

Diffusion World Model

DiffuserLite: Towards Real-time Diffusion Planning

Diffused Task-Agnostic Milestone Planner

Efficient Planning with Latent Diffusion

Learning to Reach Goals via Diffusion

Resisting Stochastic Risks in Diffusion Planners with the Trajectory Aggregation Tree


Template-DQN and DRRN agent implementations

Interactive Fiction Games: A Colossal Adventure

ScienceWorld: Is your Agent Smarter than a 5th Grader?

Behavior Cloned Transformers are Neurosymbolic Reasoners

A Minimal Approach for Natural Language Action Space in Text-based Games

Self-Supervised Behavior Cloned Transformers are Path Crawlers for Text Games


StaQC: a systematically mined dataset containing around 148K Python and 120K SQL domain question-code pairs, as described in "StaQC: A Systematically Mined Question-Code Dataset from Stack Overflow" (WWW'18)

WEB CONFERENCE 2018: PROCEEDINGS OF THE WORLD WIDE WEB CONFERENCE (WWW2018)

CodeTrans: Towards Cracking the Language of Silicon's Code Through Self-Supervised Deep Learning and High Performance Computing

Neural Code Search Revisited: Enhancing Code Snippet Retrieval through Natural Language Intent


Graph Neural Networks for Irregular Time Series

Graph-Guided Network for Irregularly Sampled Multivariate Time Series

A Survey on Graph Neural Networks for Time Series: Forecasting, Classification, Imputation, and Anomaly Detection

Improving Medical Predictions by Irregular Multimodal Electronic Health Records Modeling

Time Series as Images: Vision Transformer for Irregularly Sampled Time Series

FuseMoE: Mixture-of-Experts Transformers for Fleximodal Fusion

Blood Glucose Level Prediction: A Graph-based Explainable Method with Federated Learning

No Imputation Needed: A Switch Approach to Irregularly Sampled Time Series


Compare a statistical map of a brain with gene expression patterns from Allen Human Brain Atlas.

Local vulnerability and global connectivity jointly shape neurodegenerative disease propagation

BrainStat: A toolbox for brain-wide statistics and multimodal feature associations

Network structure and transcriptomic vulnerability shape atrophy in frontotemporal dementia

Correlation between cortical gene expression and resting‐state functional network centrality in healthy young adults

Correspondence between gene expression and neurotransmitter receptor and transporter density in the human brain

Common neural and transcriptional correlates of inhibitory control underlie emotion regulation and memory control

Pubertal timing and functional neurodevelopmental alterations independently mediate the effect of family conflict on adolescent psychopathology

Transcriptional and cellular signatures of cortical morphometric remodelling in chronic pain

Human cortex development is shaped by molecular and cellular brain systems

bioRxiv : the preprint server for biology

The regional variation of laminar thickness in the human isocortex is related to cortical hierarchy and interregional connectivity


:hibiscus: Population-Based Reinforcement Learning for Combinatorial Optimization

Efficient Active Search for Combinatorial Optimization Problems

Winner Takes It All: Training Performant RL Populations for Combinatorial Optimization

Combinatorial Optimization with Policy Adaptation using Latent Space Search


Solver-in-the-Loop: Learning from Differentiable Physics to Interact with Iterative PDE-Solvers

JAX-FLUIDS: A fully-differentiable high-order computational fluid dynamics solver for compressible two-phase flows

DeepZero: Scaling up Zeroth-Order Optimization for Deep Model Training


Official implementation of "DiffuseVAE: Efficient, Controllable and High-Fidelity Generation from Low-Dimensional Latents"

Denoising Diffusion Probabilistic Models

Deep Unsupervised Learning using Nonequilibrium Thermodynamics

Stochastic Gradient VB and the Variational Auto-Encoder

A Comprehensive Survey of AI-Generated Content (AIGC): A History of Generative AI from GAN to ChatGPT

An HCI-Centric Survey and Taxonomy of Human-Generative-AI Interactions


Advanced Techniques for Ecological Niche Modeling Made Easy

The combination of genomic offset and niche modelling provides insights into climate change-driven vulnerability


SpectRes is a Python module which efficiently resamples spectra and their associated uncertainties onto an arbitrary wavelength grid. Read the documentation at

Scaling K2. I. Revised Parameters for 222,088 K2 Stars and a K2 Planet Radius Valley at 1.9 R⊕

SpectRes: A Fast Spectral Resampling Tool in Python

The VANDELS survey: global properties of CIII]λ1908Å emitting star-forming galaxies at z∼3

First discovery of an ultra-cool white dwarf benchmark in common proper motion with an M dwarf

Monthly Notices of the Royal Astronomical Society

The Direct-method Oxygen Abundance of Typical Dwarf Galaxies at Cosmic High Noon

Characterization of Supernovae Based on the Spectral–Temporal Energy Distribution: Two Possible SN Ib Subtypes


DDPO for finetuning diffusion models, implemented in PyTorch with LoRA support

Training Diffusion Models with Reinforcement Learning

Directly Fine-Tuning Diffusion Models on Differentiable Rewards

Feedback Efficient Online Fine-Tuning of Diffusion Models

RL for Consistency Models: Faster Reward Guided Text-to-Image Generation


hyb: a bioinformatics pipeline for the analysis of CLASH (crosslinking, ligation and sequencing of hybrids) data

COMRADES determines in vivo RNA structures and interactions

Hyb: A bioinformatics pipeline for the analysis of CLASH (crosslinking, ligation and sequencing of hybrids) data

Hfq CLASH uncovers sRNA-target interaction networks linked to nutrient availability adaptation

HuD Is a Neural Translation Enhancer Acting on mTORC1-Responsive Genes and Counteracted by the Y3 Small Non-coding RNA

RNase III CLASH in MRSA uncovers sRNA regulatory networks coupling metabolism to toxin expression

Zenodo (CERN European Organization for Nuclear Research)

SRRM4 Expands the Repertoire of Circular RNAs by Regulating Microexon Inclusion

Global mapping of RNA homodimers in living cells

miRBind: A Deep Learning Method for miRNA Binding Classification


Machine learning code for quantum dots

Machine learning techniques for state recognition and auto-tuning in quantum dots

Autotuning of Double-Dot Devices In Situ with Machine Learning

QFlow lite dataset: A machine-learning approach to the charge states in quantum dot experiments

Toward Robust Autotuning of Noisy Quantum Dot Devices

Ray-based framework for state identification in quantum dot devices

Ray-based classification framework for high-dimensional data


Previously Open Dataset of Electric Vehicle specs. Now part of the Chargeprice API!

Dynamic routing for the Electric Vehicle Shortest Path Problem with charging station occupancy information

The electric vehicle shortest path problem with time windows and prize collection

PROCEEDINGS OF THE 2022 17TH CONFERENCE ON COMPUTER SCIENCE AND INTELLIGENCE SYSTEMS (FEDCSIS)


AN IMPRINT OF MOLECULAR CLOUD MAGNETIZATION IN THE MORPHOLOGY OF THE DUST POLARIZED EMISSION

Using Herschel and Planck observations to delineate the role of magnetic fields in molecular cloud structure (Corrigendum)

From parallel to perpendicular - On the orientation of magnetic fields in molecular clouds

Could bow-shaped magnetic morphologies surround filamentary molecular clouds?

The history of dynamics and stellar feedback revealed by the H I filamentary structure in the disk of the Milky Way

The relative orientation between the magnetic field and gradients of surface brightness within thin velocity slices of 12CO and 13CO emission from the Taurus molecular cloud

The Galactic dynamics revealed by the filamentary structure in atomic hydrogen emission

A global view on star formation: The GLOSTAR Galactic plane survey


An STFT/iSTFT for PyTorch.

nnAudio: An on-the-Fly GPU Audio to Spectrogram Conversion Toolbox Using 1D Convolutional Neural Networks

Speech Separation Based on Multi-Stage Elaborated Dual-Path Deep BiLSTM with Auxiliary Identity Loss

nnAudio: An on-the-fly GPU Audio to Spectrogram Conversion Toolbox Using 1D Convolution Neural Networks

Toward the pre-cocktail party problem with TasTas+.


[CVPR 2023] Official repository of paper titled "MaPLe: Multi-modal Prompt Learning".

Learning Transferable Visual Models From Natural Language Supervision

Learning to Prompt for Vision-Language Models

Conditional Prompt Learning for Vision-Language Models

MaPLe: Multi-modal Prompt Learning

Dynamic Prompting: A Unified Framework for Prompt Tuning

DePT: Decoupled Prompt Tuning


Official code for CVPR 2022 paper "Rethinking Visual Geo-localization for Large-Scale Applications"

Towards Seamless Adaptation of Pre-trained Models for Visual Place
  Recognition

CricaVPR: Cross-image Correlation-aware Representation Learning for
  Visual Place Recognition


Version 5 of the CAFE phylogenetics software

CAFE 5 models variation in evolutionary rates among gene families

Comparative genomics of the coconut crab and other decapod crustaceans: exploring the molecular basis of terrestrial adaptation

Differences in pseudogene evolution contributed to the contrasting flavors of turnip and Chiifu, two Brassica rapa subspecies

Genomic basis of multiphase evolution driving divergent selection of zinc-finger homeodomain genes

Genome-wide gene birth-death dynamics are associated with diet breadth variation in Lepidoptera


Repository for construction of Koopman eigenfunctions for unknown dynamical systems and identification of a lifted state-space model using Koopman Eigenfunction Extended Dynamic Mode Decomposition (KEEDMD).

Extended Dynamic Mode Decomposition with Learned Koopman Eigenfunctions for Prediction and Control

Episodic Koopman Learning of Nonlinear Robot Dynamics with Application to Fast Multirotor Landing

Learning the Koopman Eigendecomposition: A Diffeomorphic Approach


Implementation of VariBAD: A Very Good Method for Bayes-Adaptive Deep RL via Meta-Learning - Zintgraf et al. (ICLR 2020)

Meta reinforcement learning as task inference

Recurrent Model-Free RL Can Be a Strong Baseline for Many POMDPs

Hypernetworks in Meta-Reinforcement Learning

Improving Generalization in Meta-RL with Imaginary Tasks from Latent Dynamics Mixture

HMRL: Hyper-Meta Learning for Sparse Reward Reinforcement Learning Problem

On the Practical Consistency of Meta-Reinforcement Learning Algorithms

Meta-Learning Parameterized Skills

Meta Reinforcement Learning with Finite Training Tasks -- a Density Estimation Approach

ODE-based Recurrent Model-free Reinforcement Learning for POMDPs


Code for ICML2020 paper - CLUB: A Contrastive Log-ratio Upper Bound of Mutual Information

Representation Learning with Contrastive Predictive Coding

Deep Variational Information Bottleneck

On Variational Bounds of Mutual Information

A Differential Entropy Estimator for Training Neural Networks

Learning Disentangled Representations of Negation and Uncertainty

AniTalker: Animate Vivid and Diverse Talking Faces through Identity-Decoupled Facial Motion Encoding

Separating common from salient patterns with Contrastive Representation
  Learning


DeepGS is a R package for predicting phenotypes from genotypes using deep learning techniques.

DeepGS: Predicting phenotypes from genotypes using Deep Learning

Integrated Approach in Genomic Selection to Accelerate Genetic Gain in Sugarcane

A split-and-merge deep learning approach for phenotype prediction.

Frontiers in bioscience (Landmark edition)

Predicting phenotypes from novel genomic markers using deep learning

Predictions of Indigenous Chicken Phenotypes from Genotypes: Comparison Between Machine Learning and conventional Linear Models


Graphs, finite fields and discrete dynamical systems in Kotlin

Reweighted Random Walks for Graph Matching

Equilibrium Propagation: Bridging the Gap Between Energy-Based Models and Backpropagation

Graph Algorithms in the Language of Linear Algebra

Society for Industrial and Applied Mathematics eBooks

Path Problems in Networks

Synthesis lectures on learning, networks, and algorithms

SOSP - KnightKing: a fast distributed graph random walk engine

Symposium on Operating Systems Principles

Context-Free Path Querying by Matrix Multiplication

A novel algorithm for online inexact string matching and its FPGA implementation

Towards an API for the real numbers

Programming Language Design and Implementation

Code Search on Bytecode for Mobile App Development

PROCEEDINGS OF THE 2019 ANNUAL ACM SOUTHEAST CONFERENCE (ACMSE 2019)

Improved online algorithms for jumbled matching


Software Development Vehicles to enable extended and early co-design: a RISC-V and HPC case of study


Open source code for EMNLP-19 Paper "A Stack-Propagation Framework with Token-Level Intent Detection for Spoken Language Understanding".

Segmenting Natural Language Sentences via Lexical Unit Analysis

NATURE: Natural Auxiliary Text Utterances for Realistic Spoken Language Evaluation


A practical guide to linking brain-wide gene expression and neuroimaging data

Cortical structural differences in major depressive disorder correlate with cell type-specific transcriptional signatures

Regional brain iron and gene expression provide insights into neurodegeneration in Parkinson’s disease

Differences in network controllability and regional gene expression underlie hallucinations in Parkinson’s disease

Relating quantitative 7T MRI across cortical depths to cytoarchitectonics, gene expression and connectomics

Functional hierarchy of the angular gyrus and its underlying genetic architecture

Transcriptomic and Macroscopic Architectures of Multimodal Covariance Network Reveal Molecular-Structural-Functional Co-alterations

Cell-Type-Specific Gene Modules Related to the Regional Homogeneity of Spontaneous Brain Activity and Their Associations With Common Brain Disorders

Distinct Genetic Signatures of Cortical and Subcortical Regions Associated with Human Memory

Spatial and temporal pattern of structure-function coupling of human brain connectome with development


FFT cross-correlation based synteny aligner, (re)designed to make full use of parallel computing

Genetic and Genomic Analyses Reveal Boundaries between Species Closely Related to Cryptococcus Pathogens

halSynteny: a fast, easy-to-use conserved synteny block construction method for multiple whole-genome alignments

Chromosome-level genome assembly of the Colorado potato beetle, Leptinotarsa decemlineata

Low Mutation Load in a Supergene Underpinning Alternative Male Mating Strategies in Ruff (Calidris pugnax)


End-to-End Dense Video Captioning with Parallel Decoding (ICCV 2021)

Event-Centric Hierarchical Representation for Dense Video Captioning

IEEE Transactions on Circuits and Systems for Video Technology

A Closer Look at Temporal Ordering in the Segmentation of Instructional Videos

Event and Entity Extraction from Generated Video Captions


Tree detection from aerial imagery in Python


Round matrix elements to lower precision in MATLAB

Simulating Low Precision Floating-Point Arithmetic

Stochastic Rounding and Its Probabilistic Backward Error Analysis

A Survey of Numerical Methods Utilizing Mixed Precision Arithmetic

Stochastic rounding: implementation, error analysis and applications

Random Matrices Generating Large Growth in LU Factorization with Pivoting

SIAM Journal on Matrix Analysis and Applications

Mixed Precision Iterative Refinement with Sparse Approximate Inverse Preconditioning

Multistage mixed precision iterative refinement

Mixed Precision GMRES-based Iterative Refinement with Recycling

A Refined Probabilistic Error Bound for Sums

Mixed Precision FGMRES-Based Iterative Refinement for Weighted Least Squares


SciFive: a text-text transformer model for biomedical literature

SciFive: a text-to-text transformer model for biomedical literature

Pre-trained Language Models in Biomedical Domain: A Systematic Survey

Leveraging Biomolecule and Natural Language through Multi-Modal
  Learning: A Survey


scripts for estimating bacteria replication rates based on population genome copy number variation

Measurement of bacterial replication rates in microbial communities

Identical bacterial populations colonize premature infant gut, skin, and oral microbiomes and exhibit different in situ growth rates

The microbial gbu gene cluster links cardiovascular disease risk associated with red meat consumption to microbiota l-carnitine catabolism

The Water Microbiome Through a Pilot Scale Advanced Treatment Facility for Direct Potable Reuse

Hospitalized Premature Infants Are Colonized by Related Bacterial Strains with Distinct Proteomic Profiles

The two-component system WalKR provides an essential link between cell wall homeostasis and DNA replication in Staphylococcus aureus

In Situ Replication Rates for Uncultivated Bacteria in Microbial Communities

Circular metagenome-assembled genome of Candidatus Patescibacteria recovered from anaerobic digestion sludge


Code for reproducing the results on the MNIST dataset in the paper "Distributional Smoothing with Virtual Adversarial Training"

Virtual Adversarial Training: A Regularization Method for Supervised and Semi-Supervised Learning

Unraveling Attacks in Machine Learning-based IoT Ecosystems: A Survey and the Open Libraries Behind Them

Regularization with Latent Space Virtual Adversarial Training

Learning with Multiplicative Perturbations


Additional material for the paper "MoralStrength: Exploiting a Moral Lexicon and Embedding Similarity for Moral Foundations Prediction"

MoralStrength: Exploiting a moral lexicon and embedding similarity for moral foundations prediction

The Moral Debater: A Study on the Computational Generation of Morally Framed Arguments

From Stance to Concern: Adaptation of Propositional Analysis to New Tasks and Domains

Investigating Moral Foundations from Web Trending Topics


Latin BERT

Named Entity Recognition and Classification in Historical Documents: A Survey

Latin BERT: A Contextual Language Model for Classical Philology

Time Masking for Temporal Language Models

Temporal Attention for Language Models

Can Word Sense Distribution Detect Semantic Changes of Words?


Create feature-centric and prompt-centric visualizations for sparse autoencoders (like those from Anthropic's published research).

Improving Dictionary Learning with Gated Sparse Autoencoders

Interpreting Attention Layer Outputs with Sparse Autoencoders

The Local Interaction Basis: Identifying Computationally-Relevant and
  Sparsely Interacting Features in Neural Networks


Interior point solver for PLQ densities

Generalized Kalman smoothing: Modeling and algorithms

Generalized system identification with stable spline kernels

Fast robust methods for singular state-space models

Beyond L2-Loss Functions for Learning Sparse Models


Audio Commons Audio Extractor

DrumGAN: Synthesis of Drum Sounds With Timbral Feature Conditioning Using Generative Adversarial Networks

Neural Percussive Synthesis Parameterised by High-Level Timbral Features

LoopNet: Musical Loop Synthesis Conditioned On Intuitive Musical Parameters

DrumGAN VST: A Plugin for Drum Sound Analysis/Synthesis With Autoencoding Generative Adversarial Networks


Climate Data Store Toolbox for MATLAB


Cell Painting Gallery

Evaluating batch correction methods for image-based cell profiling

Reproducible image-based profiling with Pycytominer

Cell Painting Gallery: an open resource for image-based profiling

CHAMMI: A benchmark for channel-adaptive models in microscopy imaging


Message Passing Neural Networks for Simplicial and Cell Complexes

Weisfeiler and Lehman Go Topological: Message Passing Simplicial Networks

Weisfeiler and Lehman Go Cellular: CW Networks

Going Deeper into Permutation-Sensitive Graph Neural Networks

State of the Art and Potentialities of Graph-level Learning

CIN++: Enhancing Topological Message Passing


nTorrent implementation. The application design is presented in the paper "nTorrent: Peer-to-Peer File Sharing in Named Data Networking": https://users.cs.fiu.edu/~afanasyev/assets/papers/mastorakis2017ntorrent.pdf

Porting nTorrent to ndnSIM


Prion-Like Amino Acid Composition

PLAAC: a web and command-line application to identify proteins with prion-like amino acid composition

PhaSepDB: a database of liquid–liquid phase separation related proteins

The Hunt for Ancient Prions: Archaeal Prion-Like Domains Form Amyloid-Based Epigenetic Elements


Repository for the R-package lmerTest

A brief introduction to mixed effects modelling and multi-model inference in ecology

Root and shoot variation in relation to potential intermittent drought adaptation of Mesoamerican wild common bean (Phaseolus vulgaris L.)

A benchmarking study of SARS-CoV-2 whole-genome sequencing protocols using COVID-19 patient samples

Biopore-Induced Deep Root Traits of Two Winter Crops

Urbanization mediates the effects of water quality and climate on a model aerial insectivorous bird

Elucidating the Local Transmission Dynamics of Highly Pathogenic Avian Influenza H5N6 in the Republic of Korea by Integrating Phylogenetic Information

Rice Bran Makes a Healthy and Tasty Traditional Indonesian Goat Meatball, ‘Bakso’

The Role of Surface and Underlying Forms When Processing Tonal Alternations in Mandarin Chinese: A Mismatch Negativity Study

Segmental and suprasegmental encoding of speaker confidence in Wuxi dialect vowels

Dissociable contributions of the hippocampus and orbitofrontal cortex to representing task space in a social context


A fork of the Systems Polynomial Optimization Toolbox.

DSOS and SDSOS Optimization: More Tractable Alternatives to Sum of Squares and Semidefinite Optimization

TSSOS: A Moment-SOS hierarchy that exploits term sparsity

Chordal-TSSOS: A Moment-SOS Hierarchy That Exploits Term Sparsity with Chordal Extension

Specialized Interior-Point Algorithm for Stable Nonlinear System Identification

Reach-Avoid Problems via Sum-of-Squares Optimization and Dynamic Programming

Convex Risk Bounded Continuous-Time Trajectory Planning in Uncertain Nonconvex Environments

Walking with Confidence: Safety Regulation for Full Order Biped Models

Engineering and Business Applications of Sum of Squares Polynomials

Occupation measure methods for modelling and analysis of biological hybrid systems

Robust Nonlinear Tracking Control with Exponential Convergence Using Contraction Metrics and Disturbance Estimation


Sen1Floods11: a georeferenced dataset to train and test deep learning flood algorithms for Sentinel-1

Enhancement of Detecting Permanent Water and Temporary Water in Flood Disasters by Fusing Sentinel-1 and Sentinel-2 Imagery Using Deep Learning Algorithms: Demonstration of Sen1Floods11 Benchmark Datasets

Foundation Models for Generalist Geospatial Artificial Intelligence

Q-Seg: Quantum Annealing-based Unsupervised Image Segmentation

When are Foundation Models Effective? Understanding the Suitability for
  Pixel-Level Classification Using Multispectral Imagery


A python library for fractional fixed-point (base 2) arithmetic and binary manipulation with Numpy compatibility.

Controlling chaos using edge computing hardware

Pre-Computing Batch Normalisation Parameters for Edge Devices on a Binarized Neural Network


Bioinformatics tools for dealing with Multiple Alignment Format (MAF) files.

Gradual polyploid genome evolution revealed by pan-genomic analysis of Brachypodium hybridum and its diploid progenitors

A comparison of humans and baboons suggests germline mutation rates do not track cell divisions

Leveraging base-pair mammalian constraint to understand genetic variation and human disease

Genome-wide identification of conserved intronic non-coding sequences using a Bayesian segmentation approach

Efficient merging of genome profile alignments


Your browser's reference manager: automatic paper detection (Arxiv, OpenReview & more), publication venue matching and code repository discovery! Also enhances ArXiv: BibTex citation, Markdown link, direct download and more!

Domain-Adversarial Training of Neural Networks

Domain Randomization for Transferring Deep Neural Networks from Simulation to the Real World

Attention-Guided Generative Adversarial Networks for Unsupervised Image-to-Image Translation


code released for our ICML 2020 paper "Do We Really Need to Access the Source Data? Source Hypothesis Transfer for Unsupervised Domain Adaptation"

DINE: Domain Adaptation from Single and Multiple Black-box Predictors

Benchmarking Domain Adaptation Methods on Aerial Datasets

Robust self-supervised learning for source-free domain adaptation


Creative Commons Attribution 4.0 International

Official repository of the German Radiological Society's working group on radiological reporting templates.

Structured Reporting of Solid and Cystic Pancreatic Lesions in CT and MRI: Consensus-Based Structured Report Templates of the German Society of Radiology (DRG).

RöFo - Fortschritte auf dem Gebiet der Röntgenstrahlen und der bildgebenden Verfahren

Structured Reporting in Multiple Sclerosis – Consensus-Based Reporting Templates for Magnetic Resonance Imaging of the Brain and Spinal Cord

Structured Reporting of Acute Ischemic Stroke - Consensus-Based Reporting Templates for Non-Contrast Cranial Computed Tomography, CT Angiography, and CT Perfusion


kmeans using PyTorch

COMPOSER: Compositional Reasoning of Group Activity in Videos with Keypoint-Only Modality

Finding the Task-Optimal Low-Bit Sub-Distribution in Deep Neural Networks

From Cloze to Comprehension: Retrofitting Pre-trained Masked Language Models to Pre-trained Machine Reader

VideoTree: Adaptive Tree-based Video Representation for LLM Reasoning on
  Long Videos

CELDA: Leveraging Black-box Language Model as Enhanced Classifier without Labels


To analyze and remove gender bias in coreference resolution systems

Gender Bias in Coreference Resolution: Evaluation and Debiasing Methods

Sustainable Modular Debiasing of Language Models

Algorithmic fairness datasets: the story so far

Measuring Fairness with Biased Rulers: A Comparative Study on Bias Metrics for Pre-trained Language Models

Proceedings of the 2022 Conference of the North American Chapter of the Association for Computational Linguistics: Human Language Technologies

Mitigating Gender Bias in Distilled Language Models via Counterfactual Role Reversal

Conceptor Debiasing of Word Representations Evaluated on WEAT

Towards Understanding Gender Bias in Relation Extraction

Measuring Fairness with Biased Rulers: A Survey on Quantifying Biases in Pretrained Language Models

Human-Centric Multimodal Machine Learning: Recent Advances and Testbed on AI-Based Recruitment

The Role of Protected Class Word Lists in Bias Identification of Contextualized Word Representations

Proceedings of the First Workshop on Gender Bias in Natural Language Processing


Winner system (DAMO-NLP) of SemEval 2022 MultiCoNER shared task over 10 out of 13 tracks.

ITA: Image-Text Alignments for Multi-Modal Named Entity Recognition

DAMO-NLP at SemEval-2022 Task 11: A Knowledge-based System for Multilingual Named Entity Recognition

More Embeddings, Better Sequence Labelers?


Modular Multi-scale Integrated Genome Graph Browser

GENCODE: The reference human genome annotation for The ENCODE Project

Resolving the complexity of the human genome using single-molecule sequencing

Superbubbles, Ultrabubbles and Cacti

pileup.js: a JavaScript library for interactive and in-browser visualization of genomic data

MoMI-G: modular multi-scale integrated genome graph browser

Sequence variation aware genome references and read mapping with the variation graph toolkit


Basic programs for generating Slater-Koster files for the DFTB-method

XTANT-3: X-ray-induced Thermal And Nonthermal Transitions in matter: theory, numerical details, user manual

Hybrid functionals for periodic systems in the density functional tight-binding method

Phonon-induced band gap renormalization by dielectric dependent global hybrid density functional tight binding


Source code of the VirSorter tool, also available as an App on CyVerse/iVirus (https://de.iplantcollaborative.org/de/)

Review article: the human intestinal virome in health and disease

Application of Machine Learning in Microbiology

Overview of Virus Metagenomic Classification Methods and Their Biological Applications

Machine Learning Advances in Microbiology: A Review of Methods and Applications


Port of SPGL1 to python

The importance of phase in complex compressive sensing

Interferometric Lensless Imaging: Rank-One Projections of Image Frequencies With Speckle Illuminations

Keep the phase! Signal recovery in phase-only compressive sensing


Selected configuration interaction wave functions in phaseless auxiliary field quantum Monte Carlo.

Fixed- and Partial-Node Approximations in Slater Determinant Space for Molecules


Syllable segmentation tool for Myanmar language (Burmese) by Ye.

UCSYNLP-Lab Machine Translation Systems for WAT 2019

Pacific Asia Conference on Language, Information, and Computation

Exploring CTC Based End-to-End Techniques for Myanmar Speech Recognition

International Conference on Intelligent Computing

Syllable-based Neural Named Entity Recognition for Myanmar Language

NECTEC’s Participation in WAT-2021


Library and command line utility to do approximate string matching of a source against a bitext index and get matched source and target.

Bilingual Synchronization: Restoring Translational Relationships with Editing Operations

Proceedings of the 2022 Conference on Empirical Methods in Natural Language Processing

Integrating Translation Memories into Non-Autoregressive Machine Translation


Similarity search in the blink of an eye with compressed indices

Locally-Adaptive Quantization for Streaming Vector Search

LeanVec: Searching vectors faster by making them fit


Julia framework for energy system models with a focus on multi-period capacity expansion

Adequacy of time-series reduction for renewable energy systems

Accounting for spatiality of renewables and storage in transmission planning

Economics of nuclear power in decarbonized energy systems


Shell scripts for spectral-timing analysis of X-ray astronomical data.

Stingray: A Modern Python Library for Spectral Timing

PINT: A Modern Software Package for Pulsar Timing

All at Once: Transient Pulsations, Spin-down, and a Glitch from the Pulsating Ultraluminous X-Ray Source M82 X-2

No Time for Dead Time: Use the Fourier Amplitude Differences to Normalize Dead-time-affected Periodograms

The black hole X-ray transient Swift J1357.2-0933 as seen with Swift and NuSTAR during its 2017 outburst

Monthly notices of the Royal Astronomical Society

On the Statistical Properties of Cospectra

The Astrophysical Journal Supplement Series


Probabilistic, Non-Linear, Global-Search Earthquake Location in 3D Media

Aftershock Regions of Aleutian‐Alaska Megathrust Earthquakes, 1938–2021

Journal of Geophysical Research: Solid Earth

The 2020 Mw 6.5 Monte Cristo Range, Nevada earthquake: relocated seismicity shows rupture of a complete shear-crack system


IS mapping software

ISMapper: identifying transposase insertion sites in bacterial genomes from short read sequence data

Evolution of Bordetella pertussis over a 23-year period in France, 1996 to 2018

Genome sequence comparisons of serial multi-drug-resistant Mycobacterium tuberculosis isolates over 21 years of infection in a single patient

IS6110 Copy Number in Multi-Host Mycobacterium bovis Strains Circulating in Bovine Tuberculosis Endemic French Regions

Cooperation between physiological defenses and immune resistance produces asymptomatic carriage of a lethal bacterial pathogen

bioRxiv : the preprint server for biology

ISMapper: Identifying insertion sequences in bacterial genomes from short read sequence data


UMAP: Uniform Manifold Approximation and Projection for Dimension Reduction

Multi-scale Attributed Node Embedding

Evaluating Node Embeddings of Complex Networks


A toolbox for worst-case validation of autonomous policies

A Survey of Algorithms for Black-Box Safety Validation of Cyber-Physical Systems

Finding Failures in High-Fidelity Simulation using Adaptive Stress Testing and the Backward Algorithm

How Do We Fail? Stress Testing Perception in Autonomous Vehicles


Python package for analysing and visualising brain connectome data

A practical guide to linking brain-wide gene expression and neuroimaging data

Functional network resilience to pathology in presymptomatic genetic frontotemporal dementia

Computer Vision Evidence Supporting Craniometric Alignment of Rat Brain Atlases to Streamline Expert-Guided, First-Order Migration of Hypothalamic Spatial Datasets Related to Behavioral Control

Altered network stability in progressive supranuclear palsy

Application of Computational Biology to Decode Brain Transcriptomes

基因组蛋白质组与生物信息学报

Synaptic density affects clinical severity via network dysfunction in syndromes associated with frontotemporal lobar degeneration


Automated machine learning (AutoML) with grammar-based genetic programming

Evolution of Scikit-Learn Pipelines with Dynamic Structured Grammatical Evolution

The Technological Emergence of AutoML: A Survey of Performant Software and Applications in the Context of Industry

AutoMLBench: A Comprehensive Experimental Evaluation of Automated Machine Learning Frameworks


Temporal Graph Benchmark project repo

Temporal Graph Benchmark for Machine Learning on Temporal Graphs

An Empirical Evaluation of Temporal Graph Benchmark

A survey of dynamic graph neural networks


A Haskell library for Approximating Exact Real Numbers (AERN) based on interval computation. (aern2 is a rewrite of aern.)

Parametrised second-order complexity theory with applications to the study of interval computation

Foundation of Computer (Algebra) ANALYSIS Systems: Semantics, Logic, Programming, Verification

Auto-active Verification of Floating-point Programs via Nonlinear Real Provers

Semantics, Specification Logic, and Hoare Logic of Exact Real Computation


rdefra: Interact with the UK AIR Pollution Database from DEFRA


Python wrapper for OpenJTalk

Non-autoregressive Error Correction for CTC-based ASR with Phone-conditioned Masked LM

Dict-TTS: Learning to Pronounce with Prior Dictionary Knowledge for Text-to-Speech

Phoneme-aware Encoding for Prefix-tree-based Contextual ASR

MID-Attribute Speaker Generation Using Optimal-Transport-Based Interpolation of Gaussian Mixture Models


Personal diploid genome creation and coordinate conversion

Genomes of the Mouse Collaborative Cross

HELLS and PRDM9 form a pioneer complex to open chromatin at meiotic recombination hot spots

Diversification of small RNA pathways underlies germline RNA interference incompetence in wild Caenorhabditis elegans strains

Beyond the reference: gene expression variation and transcriptional response to RNA interference in Caenorhabditis elegans

Beyond the reference: gene expression variation and transcriptional response to RNAi inC. elegans


Python code to interface with halo catalogs and other Abacus N-body data products

ABACUSSUMMIT: a massive set of high-accuracy, high-resolution N-body simulations

Stringent σ8 constraints from small-scale galaxy clustering using a hybrid MCMC plus emulator framework

AbacusHOD: A highly efficient extended multi-tracer HOD framework and its application to BOSS and eBOSS data

Going beyond the galaxy power spectrum: An analysis of BOSS data with wavelet scattering transforms

Illustrating galaxy–halo connection in the DESI era with illustrisTNG

Monthly Notices of the Royal Astronomical Society

The halo light cone catalogues of AbacusSummit

The DESI One-Percent Survey: Exploring the Halo Occupation Distribution of Luminous Red Galaxies and Quasi-Stellar Objects with AbacusSummit

Full forward model of galaxy clustering statistics with AbacusSummit lightcones

Mitigating the noise of DESI mocks using analytic control variates

Precise cosmological constraints from BOSS galaxy clustering with a simulation-based emulator of the wavelet scattering transform


Astronomical Dust Extinction

Carbon-Enhanced Metal-Poor star candidates from BP/RP Spectra in Gaia DR3

Nebular-phase spectra of Type Ia supernovae from the Las Cumbres Observatory Global Supernova Project

The optical and NIR spectrum of the Crab pulsar with X-shooter

The Great Escape: Understanding the Connection Between Lyα Emission and LyC Escape in Simulated JWST Analogues

The long and the short of it: the benefits and leverage of ultraviolet-radio galaxy fitting

Sensitivity of JWST to eV-Scale Decaying Axion Dark Matter


A minimalistic framework for Numerical Association Rule Mining

A brief overview of swarm intelligence-based algorithms for numerical association rule mining

Improved Nature-Inspired Algorithms for Numeric Association Rule Mining

Visualization of Numerical Association Rules by Hill Slopes

Population-based metaheuristics for Association Rule Text Mining


Evaluation of language models on mono- or multilingual tasks.

ScandEval: A Benchmark for Scandinavian Natural Language Processing

Danish Foundation Models


QuAcK: a software for emerging quantum electronic structure methods

Weight dependence of local exchange–correlation functionals in ensemble density-functional theory: double excitations in two-electron systems

Dynamical correction to the Bethe-Salpeter equation beyond the plasmon-pole approximation.

Potential Energy Surfaces without Unphysical Discontinuities: The Coulomb Hole Plus Screened Exchange Approach

Journal of chemical theory and computation

Spin-Conserved and Spin-Flip Optical Excitations from the Bethe–Salpeter Equation Formalism

Unphysical discontinuities, intruder states and regularization in GW methods.

Static and dynamic Bethe-Salpeter equations in the T-matrix approximation.

Connections between many-body perturbation and coupled-cluster theories

A similarity renormalization group approach to Green's function methods

The three channels of many-body perturbation theory: GW, particle-particle, and electron-hole T-matrix self-energies.

The GW Approximation: A Quantum Chemistry Perspective


Cropbox: a declarative crop modeling framework


A toolbox for comparing brain maps

Mapping neurotransmitter systems to the structural and functional organization of the human neocortex

BrainStat: A toolbox for brain-wide statistics and multimodal feature associations

Revealing the neurobiology underlying interpersonal neural synchronization with multimodal data fusion

Cortical gene expression architecture links healthy neurodevelopment to the imaging, transcriptomics and genetics of autism and schizophrenia

Alterations of Cortical Structure and Neurophysiology in Parkinson's Disease Are Aligned with Neurochemical Systems

Gradients of brain organization: Smooth sailing from methods development
  to user community

Morphometric brain organization across the human lifespan reveals increased dispersion linked to cognitive performance


Python package for running hydrological models


The CBE Clima Tool is a web-based application built to support the need of architects and engineers interested in climate-adapted design.  It allows users to analyze the climate data of more than 27,500 locations worldwide using the data contained in EPW files.


data-parallel out-of-core library

Reinforcement Learning for Load-balanced Parallel Particle Tracing

IEEE transactions on visualization and computer graphics

Asynchronous and Load-Balanced Union-Find for Distributed and Parallel Scientific Data Visualization and Analysis


Learning Multimodal Graph-to-Graph Translation for Molecular Optimization (ICLR 2019)

Graph-based Molecular Representation Learning

Graph Polish: A Novel Graph Generation Paradigm for Molecular Optimization

Leveraging Biomolecule and Natural Language through Multi-Modal
  Learning: A Survey

Black Box Recursive Translations for Molecular Optimization


Code to reproduce the experiments in The Mirage of Action-Dependent Baselines in Reinforcement Learning.

Q-Prop: Sample-Efficient Policy Gradient with An Off-Policy Critic

Backpropagation through the Void: Optimizing control variates for black-box gradient estimation

Action-depedent Control Variates for Policy Optimization via Stein's Identity


Memory optimization and training recipes to extrapolate language models' context length to 1 million tokens, with minimal hardware.

Ring Attention with Blockwise Transformers for Near-Infinite Context

PoSE: Efficient Context Window Extension of LLMs via Positional Skip-wise Training

DeepSpeed Ulysses: System Optimizations for Enabling Training of Extreme Long Sequence Transformer Models

Long Context Transfer from Language to Vision


[ICLR 2022] Code for Graph-less Neural Networks: Teaching Old MLPs New Tricks via Distillation (GLNN)

Demystifying Structural Disparity in Graph Neural Networks: Can One Size Fit All?

Train Your Own GNN Teacher: Graph-Aware Distillation on Textual Graphs


Yet another k-mer analyzer

A draft human pangenome reference

Haplotype-aware variant calling with PEPPER-Margin-DeepVariant enables high accuracy in nanopore long-reads

THP9 enhances seed protein content and nitrogen-use efficiency in maize

Scalable Nanopore sequencing of human genomes provides a comprehensive view of haplotype-resolved variation and methylation

Whole genome assemblies ofZophobas morioandTenebrio molitor

Pangenome genotyped structural variation improves molecular phenotype mapping in cattle

A chromosome-level reference genome of a Convolvulaceae species Ipomoea cairica

The haplotype-resolved telomere-to-telomere carnation (Dianthus caryophyllus) genome reveals the correlation between genome architecture and gene expression

Synchronized long-read genome, methylome, epigenome, and transcriptome for resolving a Mendelian condition

Representing true plant genomes: haplotype-resolved hybrid pepper genome with trio-binning


Multi-task reinforcement learning benchmark.

Denoised MDPs: Learning World Models Better Than the World Itself

CORA: Benchmarks, Baselines, and Metrics as a Platform for Continual Reinforcement Learning Agents

Continuous Control with Action Quantization from Demonstrations

Curious Exploration via Structured World Models Yields Zero-Shot Object Manipulation

Guided Imitation of Task and Motion Planning

A Control-Centric Benchmark for Video Prediction

Investigating the role of model-based learning in exploration and transfer

Learning World Models with Identifiable Factorization

DreamSmooth: Improving Model-based Reinforcement Learning via Reward Smoothing

Foundations for Transfer in Reinforcement Learning: A Taxonomy of Knowledge Modalities


Repository for research works and resources related to model reprogramming <https://arxiv.org/abs/2202.10629>

Model Reprogramming: Resource-Efficient Cross-Domain Machine Learning

Adversarial Reprogramming of Pretrained Neural Networks for Fraud Detection

PROCEEDINGS OF THE 30TH ACM INTERNATIONAL CONFERENCE ON INFORMATION & KNOWLEDGE MANAGEMENT, CIKM 2021

An Improved (Adversarial) Reprogramming Technique for Neural Networks

Reprogramming GANs via Input Noise Design

MACHINE LEARNING AND KNOWLEDGE DISCOVERY IN DATABASES, ECML PKDD 2020, PT II


JAMR Parser and Generator

A Discriminative Graph-Based Parser for the Abstract Meaning Representation

PROCEEDINGS OF THE 52ND ANNUAL MEETING OF THE ASSOCIATION FOR COMPUTATIONAL LINGUISTICS, VOL 1

An Incremental Parser for Abstract Meaning Representation

Semantic Neural Machine Translation using AMR

Transactions of the Association for Computational Linguistics

Boosting Transition-based AMR Parsing with Refined Actions and Auxiliary Analyzers

PROCEEDINGS OF THE 53RD ANNUAL MEETING OF THE ASSOCIATION FOR COMPUTATIONAL LINGUISTICS (ACL) AND THE 7TH INTERNATIONAL JOINT CONFERENCE ON NATURAL LANGUAGE PROCESSING (IJCNLP), VOL 2

Parsing English into Abstract Meaning Representation Using Syntax-Based Machine Translation

Empirical Methods in Natural Language Processing

SemEval-2017 Task 9: Abstract Meaning Representation Parsing and Generation

Meeting of the Association for Computational Linguistics

Enhancing AMR-to-Text Generation with Dual Graph Representations

Rewarding Smatch: Transition-Based AMR Parsing with Reinforcement Learning

SemBleu: A Robust Metric for AMR Parsing Evaluation

Linguistic realisation as machine translation: Comparing different MT models for AMR-to-text generation

International Conference on Natural Language Generation


A tool for removing redundant genomes from a set of assemblies

Defense systems are pervasive across chromosomally integrated mobile genetic elements and are inversely correlated to virulence and antimicrobial resistance

Identification of methicillin-resistant Staphylococcus aureus ST8 isolates in China with potential high virulence

The Origins of ST11 KL64 Klebsiella pneumoniae: a Genome-Based Study

A graph-based approach for the visualisation and analysis of bacterial pangenomes

ToRQuEMaDA: Tool for Retrieving Queried Eubacteria, Metadata and Dereplicating Assemblies

SaQuant: a real-time PCR assay for quantitative assessment of Staphylococcus aureus

The man, the plant, and the insect: shooting host specificity determinants in Serratia marcescens pangenome

Miniphocaeibacter halophilus sp. nov., an ammonium-tolerant acetate-producing bacterium isolated from a biogas system

International journal of systematic and evolutionary microbiology

Simulated Nanopore metagenomic reads

Zenodo (CERN European Organization for Nuclear Research)

ColiSeq: a multiplex amplicon assay that provides strain level resolution of Escherichia coli directly from clinical specimens


Official repository for the paper "A Modern Self-Referential Weight Matrix That Learns to Modify Itself" (ICML 2022 & NeurIPS 2021 Deep RL Workshop) and "Accelerating Neural Self-Improvement via Bootstrapping" (ICLR 2023 Workshop)

Linear Transformers Are Secretly Fast Weight Programmers

Going Beyond Linear Transformers with Recurrent Fast Weight Programmers

Neural Differential Equations for Learning to Program Neural Nets Through Continuous Learning Rules


a simple map generator based on ROS

An Efficient B-Spline-Based Kinodynamic Replanning Framework for Quadrotors

Trajectory Replanning for Quadrotors Using Kinodynamic Search and Elastic Optimization

International Conference on Robotics and Automation

Robust Trajectory Planning for Spatial-Temporal Multi-Drone Coordination in Large Scenes


Bird-eye's view for CARLA simulator

Learning by Cheating

Simulation-based reinforcement learning for real-world autonomous driving

Scenario-Based Curriculum Generation for Multi-Agent Autonomous Driving


Self-supervised learning method for motion prediction

Longformer: The Long-Document Transformer

CrossViT: Cross-Attention Multi-Scale Vision Transformer for Image Classification

MotionCNN: A Strong Baseline for Motion Prediction in Autonomous Driving

RedMotion: Motion Prediction via Redundancy Reduction


SNIP: SINGLE-SHOT NETWORK PRUNING BASED ON CONNECTION SENSITIVITY

SNIP: Single-shot Network Pruning based on Connection Sensitivity

Pruning Neural Networks at Initialization: Why are We Missing the Mark?

End-to-End Supermask Pruning: Learning to Prune Image Captioning Models

FreezeNet: Full Performance by Reduced Storage Costs

COPS: Controlled Pruning Before Training Starts


Application for making ENCODE Blacklists

The ENCODE Blacklist: Identification of Problematic Regions of the Genome

Control of neurogenic competence in mammalian hypothalamic tanycytes

Global discovery of lupus genetic risk variant allelic enhancer activity

Dual histone methyl reader ZCWPW1 facilitates repair of meiotic double strand breaks in male mice

Liquid biopsy epigenomic profiling for cancer subtyping

Histone deacetylase 1 and 2 drive differentiation and fusion of progenitor cells in human placental trophoblasts

Age-related changes in polycomb gene regulation disrupt lineage fidelity in intestinal stem cells

Mapping the evolving landscape of super-enhancers during cell differentiation

The TH1 cell lineage-determining transcription factor T-bet suppresses TH2 gene expression by redistributing GATA3 away from TH2 genes

Benchmarking pipelines for subclonal deconvolution of bulk tumour sequencing data


Code Release for the paper "Make-A-Story: Visual Memory Conditioned Consistent Story Generation" in CVPR 2023

Imagine This! Scripts to Compositions to Videos

MUGEN: A Playground for Video-Audio-Text Multimodal Understanding and GENeration

StoryGPT-V: Large Language Models as Consistent Story Visualizers


This repo is the official implementation of "BEVTrack: A Simple and Strong Baseline for 3D Single Object Tracking in Bird's-Eye View".

GLT-T: Global-Local Transformer Voting for 3D Single Object Tracking in Point Clouds

OSP2B: One-Stage Point-to-Box Network for 3D Siamese Tracking


D-NeRF: Neural Radiance Fields for Dynamic Scenes

NeuS2: Fast Learning of Neural Implicit Surfaces for Multi-view Reconstruction

Unbiased 4D: Monocular 4D Reconstruction with a Neural Deformation Model

Novel View Synthesis for High-fidelity Headshot Scenes


Defense-GAN: Protecting Classifiers Against Adversarial Attacks Using Generative Models (published in ICLR2018)

Robustifying Models Against Adversarial Attacks by Langevin Dynamics

Defense-VAE: A Fast and Accurate Defense against Adversarial Attacks

Effective and Robust Detection of Adversarial Examples via Benford-Fourier Coefficients

AID-Purifier: A Light Auxiliary Network for Boosting Adversarial Defense

Perturbations are not Enough: Generating Adversarial Examples with Spatial Distortions


Certified Removal from Machine Learning Models

Certified Data Removal from Machine Learning Models

A Survey of Machine Unlearning

Certifiable Machine Unlearning for Linear Models

Efficiently Forgetting What You Have Learned in Graph Representation Learning via Projection


A temporal ordering system for events and time expressions in written text.

Improving Temporal Relation Extraction with a Globally Acquired Statistical Resource

Contextualized Word Embeddings Enhanced Event Temporal Relation Extraction for Story Understanding

Neural Language Modeling for Contextualized Temporal Graph Generation

This before That: Causal Precedence in the Biomedical Domain

Inducing Temporal Relations from Time Anchor Annotation

North American Chapter of the Association for Computational Linguistics

Predicting Event Time by Classifying Sub-Level Temporal Relations Induced from a Unified Representation of Time Anchors

Distilling Multi-Scale Knowledge for Event Temporal Relation Extraction

Fusing Temporal Graphs into Transformers for Time-Sensitive Question Answering


Affine Invariant Markov Chain Monte Carlo (MCMC) Ensemble sampler

Refining the Transit-timing and Photometric Analysis of TRAPPIST-1: Masses, Radii, Densities, Dynamics, and Ephemerides

Modeling the Formation of the Family of the Dwarf Planet Haumea

Relativistic Effects in Orbital Motion of the S-Stars at the Galactic Center

A plausible link between dynamically unsettled molecular gas and the radio jet in NGC 6328


Text Summarization for Research Papers

Text Summarization with Pretrained Encoders

A Supervised Approach to Extractive Summarisation of Scientific Papers

Data-driven Summarization of Scientific Articles


The official code for PRIMERA: Pyramid-based Masked Sentence Pre-training for Multi-document Summarization

Foundation Models for Natural Language Processing -- Pre-trained Language Models Integrating Media

SKT5SciSumm -- Revisiting Extractive-Generative Approach for Multi-Document Scientific Summarization

Chunk, Align, Select: A Simple Long-sequence Processing Method for Transformers

Multi-Document Summarization: A Comparative Evaluation


Useful resources for creating Design Artificial Intelligence

Screen Recognition: Creating Accessibility Metadata for Mobile Applications from Pixels

May AI? Design Ideation with Cooperative Contextual Bandits

Vinci: An Intelligent Graphic Design System for Generating Advertising Posters

International Conference on Human Factors in Computing Systems

Beauty in artistic expressions through the eyes of networks and physics

Designing with AI for Digital Marketing

User Modeling, Adaptation, and Personalization

Category, process, and recommendation of design in an interactive evolutionary computation interior design experiment: a data-driven study

Artificial intelligence for engineering design, analysis and manufacturing

Exemplar based experience transfer


Pretraining, fine-tuning and evaluation scripts for IndicBERT-v2 and IndicXTREME

No Language Left Behind: Scaling Human-Centered Machine Translation

MASSIVE: A 1M-Example Multilingual Natural Language Understanding Dataset with 51 Typologically-Diverse Languages

Towards Leaving No Indic Language Behind: Building Monolingual Corpora, Benchmark and Models for Indic Languages

Naamapadam: A Large-Scale Named Entity Annotated Data for Indic Languages


Dataset of medical images, captions, subfigure-subcaption annotations, and inline textual references

Neural Natural Language Processing for Unstructured Data in Electronic Health Records: a Review

BiomedGPT: A Unified and Generalist Biomedical Generative Pre-trained Transformer for Vision, Language, and Multimodal Tasks

MedICaT: A Dataset of Medical Images, Captions, and Textual References

Masked Vision and Language Pre-training with Unimodal and Multimodal Contrastive Losses for Medical Visual Question Answering

A scoping review on multimodal deep learning in biomedical images and texts

Dragonfly: Multi-Resolution Zoom Supercharges Large Visual-Language
  Model


Miscellaneous scripts

Genomic characterization of the uncultured Bacteroidales family S24-7 inhabiting the guts of homeothermic animals

An RxLR Effector from Phytophthora infestans Prevents Re-localisation of Two Plant NAC Transcription Factors from the Endoplasmic Reticulum to the Nucleus

A Year of Infection in the Intensive Care Unit: Prospective Whole Genome Sequencing of Bacterial Clinical Isolates Reveals Cryptic Transmissions and Novel Microbiota

Bacillus wiedmannii sp. nov., a psychrotolerant and cytotoxic bacillus cereus group species isolated from dairy foods and dairy environments

Genomic and proteomic evidences unravel the UV-resistome of the poly-extremophile Acinetobacter sp. Ver3

Lactococcus petauri sp. nov., isolated from an abscess of a sugar glider

Functional Genomics Insights Into the Pathogenicity, Habitat Fitness, and Mechanisms Modifying Plant Development of Rhodococcus sp. PBTS1 and PBTS2

Phylogenomic Analyses of Bradyrhizobium Reveal Uneven Distribution of the Lateral and Subpolar Flagellar Systems, Which Extends to Rhizobiales

A molecular phylogenetic framework for Bacillus subtilis using genome sequences and its application to Bacillus subtilis subspecies stecoris strain D7XPN1, an isolate from a commercial food-waste degrading bioreactor

Integrative and Conjugative Elements of Helicobacter pylori Are Hypothetical Virulence Factors Associated With Gastric Cancer

Frontiers in cellular and infection microbiology


Provide normal insulator images captured by UAVs and synthetic defective insulator images.

Data analysis in visual power line inspection: An in-depth review of deep learning for component detection and fault diagnosis

Insu-YOLO: An Insulator Defect Detection Algorithm Based on Multiscale Feature Fusion

A Lightweight Algorithm for Insulator Target Detection and Defect Identification

An Improved Algorithm for Insulator and Defect Detection Based on YOLOv4

Weather-Domain Transfer-Based Attention YOLO for Multi-Domain Insulator Defect Detection and Classification in UAV Images

Insulator Defect Detection Based on ML-YOLOv5 Algorithm

Research on Safety Detection of Transmission Line Disaster Prevention Based on Improved Lightweight Convolutional Neural Network


Code release for "Git Re-Basin: Merging Models modulo Permutation Symmetries"

REPAIR: REnormalizing Permuted Activations for Interpolation Repair

Simultaneous linear connectivity of neural networks modulo permutation


Collaborative Memory Network for Recommendation Systems, SIGIR 2018

International ACM SIGIR Conference on Research and Development in Information Retrieval

A Troubling Analysis of Reproducibility and Progress in Recommender Systems Research

ACM transactions on office information systems

Consistency-Aware Recommendation for User-Generated Item List Continuation

Neighborhood Attentional Memory Networks for Recommendation Systems


Zero-Shot Entity Linking by Reading Entity Descriptions

Neural Entity Linking: A Survey of Models Based on Deep Learning

Linking Entities to Unseen Knowledge Bases with Arbitrary Schemas

Improving Zero-Shot Entity Linking Candidate Generation with Ultra-Fine Entity Type Information

International Conference on Computational Linguistics

A Transformational Biencoder with In-Domain Negative Sampling for Zero-Shot Entity Linking

Findings of the Association for Computational Linguistics: ACL 2022

Improving Zero-Shot Entity Retrieval through Effective Dense Representations

Selecting Key Views for Zero-Shot Entity Linking

Findings of the Association for Computational Linguistics: EMNLP 2023

A Read-and-Select Framework for Zero-shot Entity Linking


A Large-Scale Rich Context Query and Recommendation Dataset in Online Knowledge-Sharing

QAGCF: Graph Collaborative Filtering for Q&A Recommendation


Learning to Prompt (L2P) for Continual Learning @ CVPR22 and DualPrompt: Complementary Prompting for Rehearsal-free Continual Learning @ ECCV22

Learning to Prompt for Continual Learning

S-Prompts Learning with Pre-trained Transformers: An Occam's Razor for Domain Incremental Learning

Mind the Interference: Retaining Pre-trained Knowledge in Parameter Efficient Continual Learning of Vision-Language Models

Transforming Transformers for Resilient Lifelong Learning


A Library for fast Hash Tables on GPUs

WarpCore: A Library for fast Hash Tables on GPUs

RTIndeX: Exploiting Hardware-Accelerated GPU Raytracing for Database Indexing

LTL learning on GPUs


Merge transcriptome assemblies

De novo assembly, characterization, functional annotation and expression patterns of the black tiger shrimp (Penaeus monodon) transcriptome

Widespread patterns of sexually dimorphic gene expression in an avian hypothalamic–pituitary–gonadal (HPG) axis

Severe acute dehydration in a desert rodent elicits a transcriptional response that effectively prevents kidney injury

Combining independent de novo assemblies to optimize leaf transcriptome of Persian walnut

Comparative Genomics of Color Morphs In the Coral Montastraea cavernosa

De novo transcriptome assembly of the Southern Ocean copepod Rhincalanus gigas sheds light on developmental changes in gene expression.

The Significance of Genotypic Diversity in Coral Competitive Interaction: A Transcriptomic Perspective

Differential Expression in Testis and Liver Transcriptomes from Four Species of Peromyscus (Rodentia: Cricetidae)

Transcriptomic analyses reveal tissue-specific selection on genes related to apoptotic processes in the subterranean rodent, Ctenomys sociabilis


AISTATS 2019: Confidence-based Graph Convolutional Networks for Semi-Supervised Learning

Neural Graph Embedding Methods for Natural Language Processing

HopGAT: Hop-aware Supervision Graph Attention Networks for Sparsely Labeled Graphs


Repository for the code of "QCD-Aware Recursive Neural Networks for Jet Physics"

Recursive Neural Networks in Quark/Gluon Tagging

End-to-end jet classification of quarks and gluons with the CMS Open Data

Interpretability Study on Deep Learning for Jet Physics at the Large Hadron Collider


MS-TCN++: Multi-Stage Temporal Convolutional Network for Action Segmentation

Fingerspelling Detection in American Sign Language

Rethinking Learning Approaches for Long-Term Action Anticipation

TUNeS: A Temporal U-Net with Self-Attention for Video-based Surgical Phase Recognition


AMR Eager trained on English, German, Italian, Spanish and Chinese

An Incremental Parser for Abstract Meaning Representation

Cross-lingual Abstract Meaning Representation Parsing

XL-AMR: Enabling Cross-Lingual AMR Parsing with Transfer Learning Techniques

PROCEEDINGS OF THE 2020 CONFERENCE ON EMPIRICAL METHODS IN NATURAL LANGUAGE PROCESSING (EMNLP)

POTATO: exPlainable infOrmation exTrAcTion framewOrk


Generalization through Memorization: Nearest Neighbor Language Models

Nearest Neighbor Machine Translation

Efficient Nearest Neighbor Language Models

Capturing Structural Locality in Non-parametric Language Models


A Cryptographic Inference Service for Neural Networks

CrypTFlow2: Practical 2-Party Secure Inference

GALA: Greedy ComputAtion for Linear Algebra in Privacy-Preserved Neural Networks

AESPA: Accuracy Preserving Low-degree Polynomial Activation for Fast Private Inference

SOTERIA: In Search of Efficient Neural Networks for Private Inference

Tabula: Efficiently Computing Nonlinear Activation Functions for Secure Neural Network Inference

SECO: Secure Inference With Model Splitting Across Multi-Server
  Hierarchy


Neural models for documents with metadata

Neural Models for Documents with Metadata

Classification aware neural topic model for COVID-19 disinformation categorisation

Improving Neural Topic Models using Knowledge Distillation

Neural Topic Modeling with Cycle-Consistent Adversarial Training

Discovering Topics in Long-tailed Corpora with Causal Intervention

Neural labeled LDA: a topic model for semi-supervised document classification

Soft Computing - A Fusion of Foundations, Methodologies and Applications

Hierarchical Interpretation of Neural Text Classification

Variational Gaussian Topic Model with Invertible Neural Projections

Classifying COVID-19 vaccine narratives


Solar Panel Detection (Turing Climate Action Call)


Deterministic Non-Autoregressive Neural Sequence Modeling by Iterative Refinement

A Survey on Non-Autoregressive Generation for Neural Machine Translation and Beyond

Guiding Non-Autoregressive Neural Machine Translation Decoding with Reordering Information

Semi-Autoregressive Image Captioning

Layer-Wise Multi-View Learning for Neural Machine Translation


Grounded SCAN data set.

A Benchmark for Systematic Generalization in Grounded Language Understanding

ReaSCAN: Compositional Reasoning in Language Grounding

Systematic Generalization on gSCAN: What is Nearly Solved and What is Next?

Think before you act: A simple baseline for compositional generalization

Improved Compositional Generalization by Generating Demonstrations for Meta-Learning


Implementations of heuristics for the Max-cut and QUBO problems in C++

Benchmark of quantum-inspired heuristic solvers for quadratic unconstrained binary optimization

Multi-Purchase Behavior: Modeling and Optimization

A Simple Iterative Algorithm for Maxcut

FastHare: Fast Hamiltonian Reduction for Large-scale Quantum Annealing


Code for T-Few from "Few-Shot Parameter-Efficient Fine-Tuning is Better and Cheaper than In-Context Learning"

Multi-Head Adapter Routing for Cross-Task Generalization

FiD-ICL: A Fusion-in-Decoder Approach for Efficient In-Context Learning

Proceedings of the 61st Annual Meeting of the Association for Computational Linguistics (Volume 1: Long Papers)

Prompt to be Consistent is Better than Self-Consistent? Few-Shot and Zero-Shot Fact Verification with Pre-trained Language Models

QA-NatVer: Question Answering for Natural Logic-based Fact Verification


my crystallographic toolbox

KAMO: towards automated data processing for microcrystals

Acta crystallographica. Section D, Structural biology

Crystal structure of the red light-activated channelrhodopsin Chrimson

Crystal structures of human ETB receptor provide mechanistic insight into receptor activation and partial activation

Structure of the bifunctional cryptochrome aCRY from Chlamydomonas reinhardtii

Development of a dose-limiting data collection strategy for serial synchrotron rotation crystallography

Raw Diffraction Images Of Endothelin Etb Receptor Bound To Clinical Antagonist Bosentan And Its Analog


AAAI'21: Data Augmentation for Graph Neural Networks

Graph Augmentation Learning

Data Augmentation for Graph Data: Recent Advancements

Revisiting Edge Perturbation for Graph Neural Network in Graph Data
  Augmentation and Attack


GRTensorIII package for Maple

Computer algebra in gravity research

Coulombic contribution to angular momentum flux in general relativity

Testing gravity with black hole shadow subrings

Symbolic tensor calculus on manifolds: a SageMath implementation

Spacetimes with a vanishing second Ricci invariant

Quasilocal energy of a rotating object described by Kerr spacetime

Pytearcat: PYthon TEnsor AlgebRa calCulATor A python package for general relativity and tensor calculus

Israel coordinates for all static spherically symmetric spacetimes with vanishing second Ricci invariant

Does a Nash theory of gravity make dark energy superfluous

Spherical and plane symmetric solutions in macroscopic gravity


nanoBench: A Low-Overhead Tool for Running Microbenchmarks on x86 Systems

International Symposium on Performance Analysis of Systems and Software

DiffTune: Optimizing CPU Simulator Parameters with Learned Differentiable Surrogates

BHive: A Benchmark Suite and Measurement Framework for Validating x86-64 Basic Block Performance Models

PROCEEDINGS OF THE 2019 IEEE INTERNATIONAL SYMPOSIUM ON WORKLOAD CHARACTERIZATION (IISWC 2019)


SemEval-2019 Task 5: Multilingual Detection of Hate Speech Against Immigrants and Women in Twitter

Deep Learning Models for Multilingual Hate Speech Detection

Exposing the limits of Zero-shot Cross-lingual Hate Speech Detection

Meeting of the Association for Computational Linguistics

Selecting and combining complementary feature representations and classifiers for hate speech detection

Highly Generalizable Models for Multilingual Hate Speech Detection

Multilingual Auxiliary Tasks Training: Bridging the Gap between Languages for Zero-Shot Transfer of Hate Speech Detection Models

Improving Automatic Hate Speech Detection with Multiword Expression Features

HURI: Hybrid user risk identification in social networks

Automated Identification of Sexual Orientation and Gender Identity Discriminatory Texts from Issue Comments


Preprocessed Python functions and docstrings for automated code documentation (code2doc) and automated code generation (doc2code) tasks.

Neural Machine Translation of Rare Words with Subword Units

Nematus: a Toolkit for Neural Machine Translation

A parallel corpus of Python functions and documentation strings for automated code documentation and code generation

Deep Learning for Source Code Modeling and Generation: Models, Applications, and Challenges

Learning Python Code Suggestion with a Sparse Pointer Network

Neural Machine Translation for Code Generation


A Graph-theoretical Network Analysis Toolkit in MATLAB

DCP: A pipeline toolbox for diffusion connectome

The Local Topological Reconfiguration in the Brain Network After Targeted Hub Dysfunction Attacks in Patients With Juvenile Myoclonic Epilepsy

Structural–functional coupling abnormalities in temporal lobe epilepsy


CVPR NTIRE 2023 Challenge on Real-Time Super-Resolution

Efficient and Accurate Quantized Image Super-Resolution on Mobile NPUs, Mobile AI & AIM 2022 challenge: Report

Efficient Deep Models for Real-Time 4K Image Super-Resolution. NTIRE 2023 Benchmark and Report

2023 IEEE/CVF Conference on Computer Vision and Pattern Recognition Workshops (CVPRW)

Bicubic++: Slim, Slimmer, Slimmest -- Designing an Industry-Grade Super-Resolution Network

Real-Time 4K Super-Resolution of Compressed AVIF Images. AIS 2024
  Challenge Survey


A python library for studying Calabi-Yau metrics

Learning Size and Shape of Calabi-Yau Spaces

Numerical metrics for complete intersection and Kreuzer–Skarke Calabi–Yau manifolds

Machine Learned Calabi-Yau Metrics and Curvature

Learning Group Invariant Calabi-Yau Metrics by Fundamental Domain
  Projections


2 ~ 6 sets venn diagram for python

Accurate and rapid prediction of tuberculosis drug resistance from genome sequence data using traditional machine learning algorithms and CNN

Genetic and phylogenetic analysis of dissimilatory iodate-reducing bacteria identifies potential niches across the world’s oceans

Toll-like Interleukin 1 Receptor Regulator Is an Important Modulator of Inflammation Responsive Genes

Metamorphic Testing for Quality Assurance of Protein Function Prediction Tools

Efficient and accurate detection of viral sequences at single-cell resolution reveals novel viruses perturbing host gene expression

bioRxiv : the preprint server for biology

Establishing comprehensive quaternary structural proteomes from genome sequence

Differential prolyl hydroxylation by six Physcomitrella prolyl-4 hydroxylases


Multiscale Dynamic Human Mobility Flow Data in the U.S. during the COVID-19 epidemic

Multiscale dynamic human mobility flow dataset in the U.S. during the COVID-19 epidemic

A Deep Gravity model for mobility flows generation

Enhancing short-term crime prediction with human mobility flows and deep learning architectures

Deep Gravity: enhancing mobility flows generation with deep neural networks and geographic information

Social vulnerability amplifies the disparate impact of mobility on COVID-19 transmissibility across the United States

Humanities and Social Sciences Communications

When Geoscience Meets Generative AI and Large Language Models:
  Foundations, Trends, and Future Challenges

Bringing spatial interaction measures into multi-criteria assessment of redistricting plans using interactive web mapping


Simplified State Space Layers for Sequence Modeling

Hungry Hungry Hippos: Towards Language Modeling with State Space Models

Hyena Hierarchy: Towards Larger Convolutional Language Models

GateLoop: Fully Data-Controlled Linear Recurrence for Sequence Modeling

Online learning of long-range dependencies

State Space Models for Event Cameras

Log Neural Controlled Differential Equations: The Lie Brackets Make a
  Difference


Experiments and data for the paper "When and why vision-language models behave like bags-of-words, and what to do about it?" Oral @ ICLR 2023

SugarCrepe: Fixing Hackable Benchmarks for Vision-Language Compositionality

Can Linguistic Knowledge Improve Multimodal Alignment in Vision-Language Pretraining?

Interpretable Diffusion via Information Decomposition

Towards reporting bias in visual-language datasets: bimodal augmentation by decoupling object-attribute association