Quantum Refinement Module

Adaptive quantum mechanics/molecular mechanics methods

Wiley Interdisciplinary Reviews Computational Molecular Science

A Density-Based Adaptive Quantum Mechanical/Molecular Mechanical Method

Chemphyschem : a European journal of chemical physics and physical chemistry

Q|R: quantum-based refinement.

Acta crystallographica. Section D, Structural biology

Toward more efficient density‐based adaptive QM/MM methods

International Journal of Quantum Chemistry

Solving the scalability issue in quantum-based refinement: Q|R#1

Yoink: An interaction‐based partitioning API

Including Crystallographic Symmetry in Quantum-based Refinement: Q|R#2


Climate Watch: Data for Climate Action


common astrophysical microphysics routines with interfaces for the different AMReX codes

Meeting the Challenges of Modeling Astrophysical Thermonuclear Explosions: Castro, Maestro, and the AMReX Astrophysics Suite

An Improved Method for Coupling Hydrodynamics with Astrophysical Reaction Networks

Neural Networks for Nuclear Reactions in MAESTROeX

Dimming the Lights: 2D Simulations of Deflagrations of Hybrid C/O/Ne White Dwarfs Using FLASH


Bidirectional Learning for Domain Adaptation of Semantic Segmentation

ESL: Entropy-guided Self-supervised Learning for Domain Adaptation in Semantic Segmentation

Robust Deep Learning for Autonomous Driving


Context-adaptive Entropy Model for End-to-end Optimized Image Compression

Learning for Video Compression with Hierarchical Quality and Recurrent Enhancement

Learning for Video Compression With Recurrent Auto-Encoder and Recurrent Probability Model

IEEE Journal on Selected Topics in Signal Processing

Perceptual Learned Video Compression with Recurrent Conditional GAN

OpenDVC: An Open Source Implementation of the DVC Video Compression Method

Microdosing: Knowledge Distillation for GAN based Compression


Autoencoder for Point Clouds

A Point Set Generation Network for 3D Object Reconstruction from a Single Image

PointGMM: a Neural GMM Network for Point Clouds

Cascaded Refinement Network for Point Cloud Completion with Self-supervision

Modeling Fabric-Type Actuator Using Point Clouds by Deep Learning


Code release for "Partial Adversarial Domain Adaptation" (ECCV 2018)

Partial Adversarial Domain Adaptation

Revisiting Deep Subspace Alignment for Unsupervised Domain Adaptation

A Reproducible and Realistic Evaluation of Partial Domain Adaptation Methods


On-Premise DeepFake Detection SDK for Linux

Taming Transformers for High-Resolution Image Synthesis

FaceForensics++: Learning to Detect Manipulated Facial Images

MesoNet: a Compact Facial Video Forgery Detection Network

International Workshop on Information Forensics and Security

Unmasking DeepFakes with simple Features

Rethinking the Up-Sampling Operations in CNN-based Generative Network for Generalizable Deepfake Detection


[CVPR2022] Geometric Transformer for Fast and Robust Point Cloud Registration

PREDATOR: Registration of 3D Point Clouds with Low Overlap

RPM-Net: Robust Point Matching Using Learned Features

PRNet: Self-Supervised Learning for Partial-to-Partial Registration

GeoTransformer: Fast and Robust Point Cloud Registration with Geometric Transformer

PosDiffNet: Positional Neural Diffusion for Point Cloud Registration in a Large Field of View with Perturbations


The project is an official implementation of our CVPR2020 paper "Attention Mechanism Exploits Temporal Contexts: Real-time 3D Human Pose Reconstruction"

Attention Mechanism Exploits Temporal Contexts: Real-Time 3D Human Pose Reconstruction

Recent Advances of Monocular 2D and 3D Human Pose Estimation: A Deep Learning Perspective

Enhanced 3D Human Pose Estimation from Videos by Using Attention-Based Neural Network with Dilated Convolutions


Efficient Algorithms for t-distributed Stochastic Neighborhood Embedding

VEGA is an interpretable generative model for inferring biological network activity in single-cell transcriptomics

Imputing single-cell RNA-seq data by considering cell heterogeneity and prior expression of dropouts

A comparative analysis of rod bipolar cell transcriptomes identifies novel genes implicated in night vision


Quantitative prediction of enhancer-promoter interactions

Exploring 3D chromatin contacts in gene regulation: The evolution of approaches for the identification of functional enhancer-promoter interaction

Computational and structural biotechnology journal

EAGLE: An algorithm that utilizes a small number of genomic features to predict tissue/cell type-specific enhancer-gene interactions

Local Epigenomic Data are more Informative than Local Genome Sequence Data in Predicting Enhancer-Promoter Interactions Using Neural Networks

CT-FOCS: a novel method for inferring cell type-specific enhancer-promoter maps

Enhancer/gene relationships: Need for more reliable genome-wide reference sets

Latent representation of the human pan-celltype epigenome through a deep recurrent neural network

CENTRE: A gradient boosting algorithm for Cell-type-specific ENhancer-Target pREdiction

Machine and deep learning methods for predicting 3D genome organization.

Hi-C-LSTM: Learning representations of chromatin contacts using a recurrent neural network identifies genomic drivers of 3D genome conformation


A Tensorflow implementation of RetinexNet

Deep Retinex Decomposition for Low-Light Enhancement

UG^2+ Track 2: A Collective Benchmark Effort for Evaluating and Advancing Image Understanding in Poor Visibility Environments

A Novel DenseNet Generative Adversarial Network for Heterogenous Low-Light Image Enhancement


Histology processing

Behavioral origin of sound-evoked activity in mouse visual cortex

Mouse frontal cortex mediates additive multisensory decisions

Structural and functional map for forelimb movement phases between cortex and medulla

Deep learning-based feature extraction for prediction and interpretation of sharp-wave ripples in the rodent hippocampus

Spatial Atlas of the Mouse Central Nervous System at Molecular Resolution

An adaptable, reusable, and light implant for chronic Neuropixels probes

bioRxiv : the preprint server for biology

Tools for accurate post hoc determination of marker location within whole-brain microscopy images

Reward modulates visual responses in the superficial superior colliculus of mice


[AAAI 2019] Source code and datasets for "Session-based Recommendation with Graph Neural Networks"

THIRTY-THIRD AAAI CONFERENCE ON ARTIFICIAL INTELLIGENCE / THIRTY-FIRST INNOVATIVE APPLICATIONS OF ARTIFICIAL INTELLIGENCE CONFERENCE / NINTH AAAI SYMPOSIUM ON EDUCATIONAL ADVANCES IN ARTIFICIAL INTELLIGENCE

A Survey on Session-based Recommender Systems

Global Context Enhanced Graph Neural Networks for Session-based Recommendation

PROCEEDINGS OF THE 43RD INTERNATIONAL ACM SIGIR CONFERENCE ON RESEARCH AND DEVELOPMENT IN INFORMATION RETRIEVAL (SIGIR '20)

Graph Learning based Recommender Systems: A Review

NISER: Normalized Item and Session Representations to Handle Popularity Bias

Efficiently Leveraging Multi-level User Intent for Session-based Recommendation via Atten-Mixer Network

Evolutionary Preference Learning via Graph Nested GRU ODE for Session-based Recommendation

Proceedings of the 31st ACM International Conference on Information & Knowledge Management

Session-aware Linear Item-Item Models for Session-based Recommendation

Exploring Global Information for Session-based Recommendation

Comprehensive Empirical Evaluation of Deep Learning Approaches for Session-based Recommendation in E-Commerce


Incremental construction of FM-index for DNA sequences

Fast construction of FM-index for long sequence reads

Burrows-Wheeler transform for terabases

Efficient Construction of the BWT for Repetitive Text Using String Compression

Computing the optimal BWT of very large string collections

A New Class of String Transformations for Compressed Text Indexing


StoRM: A Diffusion-based Stochastic Regeneration Model for Speech Enhancement and Dereverberation

StoRM: A Diffusion-Based Stochastic Regeneration Model for Speech Enhancement and Dereverberation

Noise-aware Speech Enhancement using Diffusion Probabilistic Model

Thunder : Unified Regression-Diffusion Speech Enhancement with a Single
  Reverse Step using Brownian Bridge


SSSegmentation: An Open Source Supervised Semantic Segmentation Toolbox Based on PyTorch.

ISNet: Integrate Image-Level and Semantic-Level Context for Semantic Segmentation

MCIBI++: Soft Mining Contextual Information Beyond Image for Semantic Segmentation

IDRNet: Intervention-Driven Relation Network for Semantic Segmentation

SSSegmenation: An Open Source Supervised Semantic Segmentation Toolbox Based on PyTorch


Code for: "Fast and Flexible Multi-Task Classification Using Conditional Neural Adaptive Processes" and "TaskNorm: Rethinking Batch Normalization for Meta-Learning"

Meta-Dataset: A Dataset of Datasets for Learning to Learn from Few Examples

Feature extractor stacking for cross-domain few-shot learning

Adversarial Attacks are a Surprisingly Strong Baseline for Poisoning Few-Shot Meta-Learners


A Python implementation of the BM25 ranking function.

Multilingual Universal Sentence Encoder for Semantic Retrieval

ReQA: An Evaluation for End-to-End Answer Retrieval Models

Empirical Methods in Natural Language Processing

Building an intelligent system for answering specialized questions about COVID-19


GPT4Vis: What Can GPT-4 Do for Zero-shot Visual Recognition?

Revisiting Classifier: Transferring Vision-Language Models for Video Recognition

Cap4Video: What Can Auxiliary Captions Do for Text-Video Retrieval?

Bidirectional Cross-Modal Knowledge Exploration for Video Recognition with Pre-trained Vision-Language Models


ManTra-Net: Manipulation Tracing Network For Detection And Localization of Image Forgeries With Anomalous Features

ManTra-Net: Manipulation Tracing Network for Detection and Localization of Image Forgeries With Anomalous Features

SPAN: Spatial Pyramid Attention Network for Image Manipulation Localization

Image Manipulation Detection by Multi-View Multi-Scale Supervision

MVSS-Net: Multi-View Multi-Scale Supervised Networks for Image Manipulation Detection

IEEE transactions on pattern analysis and machine intelligence

AutoSplice: A Text-prompt Manipulated Image Dataset for Media Forensics


KdConv: A Chinese Multi-domain Dialogue Dataset Towards Multi-turn Knowledge-driven Conversation

Pre-training language model incorporating domain-specific heterogeneous knowledge into a unified representation

An Evaluation of Chinese Human-Computer Dialogue Technology

RT-KGD: Relation Transition Aware Knowledge-Grounded Dialogue Generation

An Empirical Study on Deep Neural Network Models for Chinese Dialogue Generation

Prediction, Selection, and Generation: Exploration of Knowledge-Driven Conversation System


Challenges in Data-to-Document Generation

A Survey on Document-level Neural Machine Translation: Methods and Evaluation

Revisiting Challenges in Data-to-Text Generation with Fact Grounding

International Conference on Natural Language Generation

Stepwise Extractive Summarization and Planning with Structured Transformers

A Survey on Document-level Machine Translation: Methods and Evaluation

Improving Encoder by Auxiliary Supervision Tasks for Table-to-Text Generation

Meeting of the Association for Computational Linguistics

Enhancing Content Planning for Table-to-Text Generation with Data Understanding and Verification

TLM: Token-Level Masking for Transformers


Code for model proposed in:  Nachiket Deo and Mohan M. Trivedi,"Convolutional Social Pooling for Vehicle Trajectory Prediction." CVPRW, 2018

GRIP: Graph-based Interaction-aware Trajectory Prediction

GRIP++: Enhanced Graph-based Interaction-aware Trajectory Prediction for Autonomous Driving

Predicting Vehicle Behaviors Over An Extended Horizon Using Behavior Interaction Network

SIT: A Spatial Interaction-Aware Transformer-Based Model for Freeway Trajectory Prediction

ISPRS International Journal of Geo-Information

Comparing merging behaviors observed in naturalistic data with behaviors generated by a machine learned model


Tensor network machine learning. Based on the paper "Supervised Learning with Quantum Inspired Tensor Networks" http://arxiv.org/abs/1605.05775

Supervised Learning with Tensor Networks

Supervised Learning with Quantum-Inspired Tensor Networks

Exponential Machines


A Learning-based Iterative Method for Solving Vehicle Routing Problems

International Conference on Learning Representations

Local Optima Correlation Assisted Adaptive Operator Selection

Learning Enhanced Optimisation for Routing Problems


BCCD (Blood Cell Count and Detection) Dataset is a small-scale dataset for blood cells detection.

Machine learning approach of automatic identification and counting of blood cells

Classification of white blood cells using weighted optimized deformable convolutional neural networks

Artificial cells, nanomedicine, and biotechnology

UKSSL: Underlying Knowledge based Semi-Supervised Learning for Medical Image Classification

IEEE Open Journal of Engineering in Medicine and Biology

A review of microscopic analysis of blood cells for disease detection with AI perspective

Lights and Shadows in Evolutionary Deep Learning: Taxonomy, Critical Methodological Analysis, Cases of Study, Learned Lessons, Recommendations and Challenges

Automated human cell classification in sparse datasets using few-shot learning

LVM-Med: Learning Large-Scale Self-Supervised Vision Models for Medical Imaging via Second-order Graph Matching

A Calibrated Multiexit Neural Network for Detecting Urothelial Cancer Cells

Computational and mathematical methods in medicine

Convolutional Neural Network and decision support in medical imaging: case study of the recognition of blood cell subtypes

Deep Learning Segmentation and Classification of Red Blood Cells Using a
  Large Multi-Scanner Dataset


GeDi: Generative Discriminator Guided Sequence Generation

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

Neural Machine Translation of Rare Words with Subword Units

Generative and Discriminative Text Classification with Recurrent Neural Networks

Detecting computer-generated disinformation

International Journal of Data Science and Analytics

Tailor: A Prompt-Based Approach to Attribute-Based Controlled Text Generation

CounterGeDi: A controllable approach to generate polite, detoxified and emotional counterspeech

Generating Scientific Definitions with Controllable Complexity

Proceedings of the 60th Annual Meeting of the Association for Computational Linguistics (Volume 1: Long Papers)

Tailor: A Soft-Prompt-Based Approach to Attribute-Based Controlled Text Generation

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

Controlled Text Generation with Hidden Representation Transformations


Reproduce CheXNet

ChestX-ray: Hospital-Scale Chest X-ray Database and Benchmarks on Weakly Supervised Classification and Localization of Common Thorax Diseases

Deep Learning and Convolutional Neural Networks for Medical Imaging and Clinical Informatics

CheXNet: Radiologist-Level Pneumonia Detection on Chest X-Rays with Deep Learning

The Marginal Value of Adaptive Gradient Methods in Machine Learning

Data valuation for medical imaging using Shapley value and application to a large-scale chest X-ray dataset

An Ensemble of Global and Local-Attention Based Convolutional Neural Networks for COVID-19 Diagnosis on Chest X-ray Images

Learning Visual Context by Comparison

Consistency-Based Semi-supervised Evidential Active Learning for Diagnostic Radiograph Classification

Image and structured data analysis for prognostication of health outcomes in patients presenting to the ED during the COVID-19 pandemic

International journal of medical informatics

Individual predictions matter: Assessing the effect of data ordering in training fine-tuned CNNs for medical imaging

Secure deep learning for distributed data against maliciouscentral server


Angular penalty loss functions in Pytorch (ArcFace, SphereFace, Additive Margin, CosFace)

ArcFace: Additive Angular Margin Loss for Deep Face Recognition

IEEE Transactions on Pattern Analysis and Machine Intelligence

SphereFace: Deep Hypersphere Embedding for Face Recognition

CosFace: Large Margin Cosine Loss for Deep Face Recognition

Additive Margin Softmax for Face Verification


A versatile aligning pipeline for bisulfite sequencing data

Introduction to Single-Cell DNA Methylation Profiling Methods

Integrating Epigenomics into the Understanding of Biomedical Insight

Epigenetics and Early Life Stress: Experimental Brood Size Affects DNA Methylation in Great Tits (Parus major)


Environmental data for Antarctic and Southern Ocean science


Voice Conversion by CycleGAN (语音克隆/语音转换): CycleGAN-VC2

Image-to-Image Translation with Conditional Adversarial Networks

Unpaired Image-to-Image Translation using Cycle-Consistent Adversarial Networks

AUTOVC: Zero-Shot Voice Style Transfer with Only Autoencoder Loss

StarGAN-VC: non-parallel many-to-many Voice Conversion Using Star Generative Adversarial Networks

Neural Voice Cloning with a Few Samples

Voice Conversion from Non-parallel Corpora Using Variational Auto-encoder

CycleGAN-VC2: Improved CycleGAN-based Non-parallel Voice Conversion

MOSNet: Deep Learning based Objective Assessment for Voice Conversion

One-shot Voice Conversion by Separating Speaker and Content Representations with Instance Normalization

Learning to Speak Fluently in a Foreign Language: Multilingual Speech Synthesis and Cross-Language Voice Cloning


Machine-readable Wiktionary

Watset: Automatic Induction of Synsets from a Graph of Synonyms

PROCEEDINGS OF THE 55TH ANNUAL MEETING OF THE ASSOCIATION FOR COMPUTATIONAL LINGUISTICS (ACL 2017), VOL 1

Multilingual ontology matching based on Wiktionary data accessible via SPARQL endpoint

YARN: Spinning-in-Progress

Watset: Local-Global Graph Clustering with Applications in Sense and Frame Induction

The comparison of Wiktionary thesauri transformed into the machine-readable format

Evaluating a Multi-sense Definition Generation Model for Multiple Languages

Calculated attributes of synonym sets


flexible barcode and adapter removal

Simultaneous sequencing of genetic and epigenetic bases in DNA

Genome-wide analysis of the Dof gene family in durian reveals fruit ripening-associated and cultivar-dependent Dof transcription factors

De novo assembly of Persea americana cv. ‘Hass’ transcriptome during fruit development

Homeostatic plasticity fails at the intersection of autism-gene mutations and a novel class of common genetic modifiers

De Novo Transcriptome Sequencing in Kiwifruit (Actinidia chinensis var. deliciosa (A Chev) Liang et Ferguson) and Development of Tissue-Specific Transcriptomic Resources

Mkt1 is required for RNAi-mediated silencing and establishment of heterochromatin in fission yeast

Identification of Novel Placentally Expressed Aspartic Proteinase in Humans

International journal of molecular sciences

A gene expression signature in HER2+ breast cancer patients related to neoadjuvant chemotherapy resistance, overall survival, and disease-free survival

mRNA expression and DNA methylation analysis of the inhibitory mechanism of H2O2 on the proliferation of A549 cells

Mapping Exosome-Substrate Interactions In Vivo by UV Cross-Linking.

Methods in molecular biology (Clifton, N.J.)


A user-friendly workflow for phylogenomics

GToTree: a user-friendly workflow for phylogenomics

Single-Cell Genomics of Novel Actinobacteria With the Wood–Ljungdahl Pathway Discovered in a Serpentinizing System

Whole Genome Sequencing and Comparative Genomics of Two Nematicidal Bacillus Strains Reveals a Wide Range of Possible Virulence Factors

Applications and Considerations of GToTree: A User-Friendly Workflow for Phylogenomics

Revealing the Host-Dependent Nature of an Engineered Genetic Inverter in Concordance with Physiology

Hadza Prevotella require diet-derived microbiota-accessible carbohydrates to persist in mice

bioRxiv : the preprint server for biology

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

International journal of systematic and evolutionary microbiology


Urban Multi-scale Environmental Predictor


Data acquisition source code for Miniscope project.

Prefrontal cortical regulation of REM sleep

Ketamine evoked disruption of entorhinal and hippocampal spatial maps

Calcium Dynamics of the Ventrolateral Preoptic GABAergic Neurons during Spontaneous Sleep-Waking and in Response to Homeostatic Sleep Demands


[NeurIPS 2023] LLM-Pruner: On the Structural Pruning of Large Language Models. Support Llama-3/3.1, Llama-2, LLaMA,  BLOOM, Vicuna, Baichuan, TinyLlama, etc.

A Survey on Deep Neural Network Pruning-Taxonomy, Comparison, Analysis, and Recommendations

APT: Adaptive Pruning and Tuning Pretrained Language Models for Efficient Training and Inference

LLaMA-NAS: Efficient Neural Architecture Search for Large Language
  Models


iCNN: image reconstruction from CNN features

A Neural Algorithm of Artistic Style

Understanding Deep Image Representations by Inverting Them

Generating Images with Perceptual Similarity Metrics based on Deep Networks

Synthesizing the preferred inputs for neurons in neural networks via deep generator networks


Dubbing in Practice: A Large Scale Study of Human Localization With Insights for Automatic Dubbing

Jointly Optimizing Translations and Speech Timing to Improve Isochrony in Automatic Dubbing

Improving Isochronous Machine Translation with Target Factors and Auxiliary Counters


R  to download  open water quality data


Creative Commons Attribution 4.0 International

Room-across-Room (RxR) is a large-scale, multilingual dataset for Vision-and-Language Navigation (VLN) in Matterport3D environments. It contains 126k navigation instructions in English, Hindi and Telugu, and 126k navigation following demonstrations. Both annotation types include dense spatiotemporal alignments between the text and the visual perceptions of the annotators

Vision-and-Language Navigation: Interpreting visually-grounded navigation instructions in real environments

On Evaluation of Embodied Navigation Agents

Room-Across-Room: Multilingual Vision-and-Language Navigation with Dense Spatiotemporal Grounding

General Evaluation for Instruction Conditioned Navigation using Dynamic Time Warping

Less is More: Generating Grounded Navigation Instructions from Landmarks

A New Path: Scaling Vision-and-Language Navigation with Synthetic Instructions and Imitation Learning


MCMC Sampler for Performing Bayesian Inference on Continuous Time Autoregressive Models.

FLEXIBLE AND SCALABLE METHODS FOR QUANTIFYING STOCHASTIC VARIABILITY IN THE ERA OF MASSIVE TIME-DOMAIN ASTRONOMICAL DATA SETS

Supermassive Black Holes with High Accretion Rates in Active Galactic Nuclei. VIII. Structure of the Broad-line Region and Mass of the Central Black Hole in Mrk 142

The remarkable X-ray variability of IRAS 13224–3809 – I. The variability process

Monthly notices of the Royal Astronomical Society

A Comprehensive Power Spectral Density Analysis of Astronomical Time Series. I. The Fermi-LAT Gamma-Ray Light Curves of Selected Blazars

The Astrophysical Journal Supplement Series

Discovery of a candidate binary supermassive black hole in a periodic quasar from circumbinary accretion variability

The Lick AGN Monitoring Project 2016: Velocity-resolved Hβ Lags in Luminous Seyfert Galaxies

A full characterization of the supermassive black hole in IRAS 09149–6206

A new approach for measuring power spectra and reconstructing time series in active galactic nuclei

Monthly Notices of the Royal Astronomical Society: Letters

Rapid Optical Flares in the Blazar OJ 287 on Intraday Timescales with TESS


Standing genetic variation fuels rapid evolution of herbicide resistance in blackgrass

Whole‐genome sequencing of SARS‐CoV‐2: Comparison of target capture and amplicon single molecule real‐time sequencing protocols

SARS-CoV-2 Co-Infections and Recombinations Identified by Long-Read Single-Molecule Real-Time Sequencing

VCFCons: a versatile VCF-based consensus sequence generator for small genomes


Transformers for Longer Sequences

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

Big Bird: Transformers for Longer Sequences

Long Range Arena: A Benchmark for Efficient Transformers

Leveraging Pre-trained Checkpoints for Sequence Generation Tasks

An Empirical Survey on Long Document Summarization: Datasets, Models, and Metrics

Bringing order into the realm of Transformer-based language models for artificial intelligence and law

Degendering Resumes for Fair Algorithmic Resume Screening


Code and data for paper Colorless Green Recurrent Networks Dream Hierarchically

Colorless green recurrent networks dream hierarchically

Mechanisms for handling nested dependencies in neural-network language models and humans

Cross-linguistic Comparison of Linguistic Feature Encoding in BERT Models for Typologically Different Languages

Proceedings of the 4th Workshop on Research in Computational Linguistic Typology and Multilingual NLP

Neural Networks Can Learn Patterns of Island-insensitivity in Norwegian


Framework for 0-D Atmospheric Modeling

Supplementary material to "Development of Ozone Reactivity Scales for Volatile Organic Compounds in a
Chinese Megacity"

Insights into the significant increase in ozone during COVID-19 in a typical urban city of China

What the COVID-19 lockdown revealed about photochemistry and ozone production in Quito, Ecuador

Atmospheric measurements at Mt. Tai - Part II: HONO budget and radical (ROx + NO3) chemistry in the lower boundary layer

The Lack of HONO Measurement May Affect the Accurate Diagnosis of Ozone Production Sensitivity

Wintertime Formaldehyde: Airborne Observations and Source Apportionment Over the Eastern United States

Journal of Geophysical Research: Atmospheres

Evolution of formaldehyde (HCHO) in a plume originating from a petrochemical industry and its volatile organic compounds (VOCs) emission rate estimation

Atmospheric Measurements at the Foot and the Summit of Mt. Tai – Part II: HONO Budget and Radical (ROx + NO3) Chemistry in the Lower Boundary Layer

Sensitivity of northeastern US surface ozone predictions to the representation of atmospheric chemistry in the Community Regional Atmospheric Chemistry Multiphase Mechanism (CRACMMv1.0)


mPTP - a tool for single-locus species delimitation

Multi-rate Poisson tree processes for single-locus species delimitation under maximum likelihood and Markov chain Monte Carlo

Pragmatic Assignment of Species Groups Based on Primary Species Hypotheses: The Case of a Dominant Component of the Southern Ocean Benthic Fauna

What DNA barcodes reveal: microhabitat preference, hunting strategy and dispersal ability drive genetic variation across Iberian spider species

Recurrent founder-event speciation across the Mediterranean likely shaped the species diversity and geographic distribution of the freshwater snail genus Mercuria Boeters, 1971 (Caenogastropoda: Hydrobiidae).


PheKnowLator: Heterogeneous Biomedical Knowledge Graphs and Benchmarks Constructed Under Alternative Semantic Models

A Review of Biomedical Datasets Relating to Drug Discovery: A Knowledge
  Graph Perspective

Knowledge-based Biomedical Data Science 2019

Hypernetwork Science: From Multidimensional Networks to Computational Topology

A Framework for Automated Construction of Heterogeneous Large-Scale Biomedical Knowledge Graphs

Applying knowledge-driven mechanistic inference to toxicogenomics

An open source knowledge graph ecosystem for the life sciences

An Open-Source Knowledge Graph Ecosystem for the Life Sciences


This is the repo for our Detection of Traffic Anomaly (DoTA) dataset.

DoTA: Unsupervised Detection of Traffic Anomaly in Driving Videos

IEEE transactions on pattern analysis and machine intelligence

When, Where, and What? A New Dataset for Anomaly Detection in Driving Videos

Video Anomaly Detection for Smart Surveillance

Vision-Based Traffic Accident Detection and Anticipation: A Survey


Primer3 is a command line tool to select primers for polymerase chain reaction (PCR).

TinoTranscriptDB: A Database of Transcripts and Microsatellite Markers of Tinospora cordifolia, an Important Medicinal Plant

A novel transposable element-based authentication protocol for Drosophila cell lines

De Novo Transcriptome Profiling for the Generation and Validation of Microsatellite Markers, Transcription Factors, and Database Development for Andrographis paniculata

Genome-Wide DNA Polymorphism Analysis and Molecular Marker Development for the Setaria italica Variety “SSR41” and Positional Cloning of the Setaria White Leaf Sheath Gene SiWLS1

Genome Assembly and Microsatellite Marker Development Using Illumina and PacBio Sequencing in the Carex pumila (Cyperaceae) from Korea

De novo transcriptome assembly using Illumina sequencing and development of EST-SSR markers in a monoecious herb Sagittaria trifolia Linn


Cloud-based single-cell copy-number variation analysis tool

Assessing the performance of methods for copy number aberration detection from single-cell DNA sequencing data

Chemotherapy induces canalization of cell state in childhood B-cell precursor acute lymphoblastic leukemia

Single-cell somatic copy number variants in brain using different amplification methods and reference genomes


PyDictionary is a Dictionary Module for Python 2/3 to get meanings, translations, synonyms and antonyms of words

Robustness to Spurious Correlations in Text Classification via Automatically Generated Counterfactuals

Using BERT Encoding to Tackle the Mad-lib Attack in SMS Spam Detection

A Metamorphic Testing Approach for Assessing Question Answering Systems

SimpLex: a lexical text simplification architecture


Package implementing various parametric and nonparametric methods for conditional density estimation

Conditional Density Estimation with Neural Networks: Best Practices and Benchmarks

Noise Regularization for Conditional Density Estimation


Reinforcement Learning environments for Traffic Signal Control with SUMO. Compatible with Gymnasium, PettingZoo, and popular RL libraries.

Quantifying the impact of non-stationarity in reinforcement learning-based traffic signal control

Generative Adversarial Reward Learning for Generalized Behavior Tendency Inference

A Comparative Study of Algorithms for Intelligent Traffic Signal Control

Smart innovation, systems and technologies

Deep Reinforcement Learning-based Intelligent Traffic Signal Controls with Optimized CO2 emissions

RAMRL: Towards Robust On-Ramp Merging via Augmented Multimodal Reinforcement Learning

Deep Reinforcement Learning for Autonomous Cyber Operations: A Survey


Constrained Large Deformation Diffeomorphic Image Registration (CLAIRE)

CLAIRE: A distributed-memory solver for constrained large deformation diffeomorphic image registration

SIAM journal on scientific computing : a publication of the Society for Industrial and Applied Mathematics

Multi-Node Multi-GPU Diffeomorphic Image Registration for Large-Scale Imaging Problems

PROCEEDINGS OF SC20: THE INTERNATIONAL CONFERENCE FOR HIGH PERFORMANCE COMPUTING, NETWORKING, STORAGE AND ANALYSIS (SC20)

3D optical flow for large CT data of materials microstructures

CLAIRE: Constrained Large Deformation Diffeomorphic Image Registration on Parallel Computing Architectures

CLAIRE -- Parallelized Diffeomorphic Image Registration for Large-Scale Biomedical Imaging Applications


Create Ecological Niche Models with TheMetaLand

Climate change and bird extinctions in the Amazon

Multi-temporal ecological niche modeling for bird conservation in the face of climate change scenarios in Caatinga, Brazil

Synergistic effects of climate and landscape change on the conservation of Amazonian lizards


WASP: allele-specific pipeline for unbiased read mapping and molecular QTL discovery

Single-cell epigenomic analyses implicate candidate causal variants at inherited risk loci for Alzheimer's and Parkinson's diseases

High-throughput allele-specific expression across 250 environmental conditions

Genetic and Transcriptional Analysis of Human Host Response to Healthy Gut Microbiota

Population-scale study of eRNA transcription reveals bipartite functional enhancer architecture

Mapping genetic effects on cell type-specific chromatin accessibility and annotating complex immune trait variants using single nucleus ATAC-seq in peripheral blood

Genetic architecture of microRNA expression and its link to complex diseases in the Japanese population

scDALI: modeling allelic heterogeneity in single cells reveals context-specific genetic regulation

A Chinese indicine pan-genome reveals a wealth of novel structural variants introgressed from other Bos species

Zenodo (CERN European Organization for Nuclear Research)


A framework for Big Data Optimization with multi-objective metaheuristics

jMetalSP: A framework for dynamic multi-objective big data optimization

InDM2: Interactive Dynamic Multi-Objective Decision Making Using Evolutionary Algorithms

Multi-objective Big Data Optimization with jMetal and Spark

Dynamic Multi-Objective Optimization with jMetal and Spark: A Case Study


cortex lab code for electrophysiology

Chronically-implanted Neuropixels probes enable high yield recordings in freely moving mice

Distance-tuned neurons drive specialized path integration calculations in medial entorhinal cortex

Mouse entorhinal cortex encodes a diverse repertoire of self-motion signals

Binocular Suppression in the Macaque Lateral Geniculate Nucleus Reveals Early Competitive Interactions between the Eyes

3D printed guide tube system for acute Neuropixels probe recordings in non-human primates

Oxytocin induces the formation of distinctive cortical representations and cognitions biased toward familiar mice


KrakenTools provides individual scripts to analyze Kraken/Kraken2/Bracken/KrakenUniq output files

Tracking the transition to agriculture in Southern Europe through ancient DNA analysis of dental calculus

Proceedings of the National Academy of Sciences of the United States of America

Exploring the Past Biosphere of Chew Bahir/Southern Ethiopia: Cross-Species Hybridization Capture of Ancient Sedimentary DNA from a Deep Drill Core

Genomic epidemiology of Mycobacterium avium subsp. paratuberculosis isolates from Canadian dairy herds provides evidence for multiple infection events

Diverse recruitment to a globally structured atmospheric microbiome

Leptospira enrichment culture followed by ONT metagenomic sequencing allows better detection of Leptospira presence and diversity in water and soil samples

Shotgun-metagenomics reveals a highly diverse and communal microbial network present in the drains of three beef-processing plants

Frontiers in cellular and infection microbiology

Influenza A genomic diversity during human infections underscores the strength of genetic drift and the existence of tight transmission bottlenecks

LABRADOR—A Computational Workflow for Virus Detection in High-Throughput Sequencing Data

Rescue of Mycobacterium bovis DNA Obtained from Cultured Samples during Official Surveillance of Animal TB: Key Steps for Robust Whole Genome Sequence Data Generation

International journal of molecular sciences

Kraken2 Human Pangenome Reference Consortium database


Multivariate Exploratory Data Analysis Toolbox for Matlab

Multivariate Big Data Analysis for intrusion detection: 5 steps from the haystack to the needle

Comparison of Multivariate ANOVA-Based Approaches for the Determination of Relevant Variables in Experimentally Designed Metabolomic Studies

Variable-selection ANOVA Simultaneous Component Analysis (VASCA)


⛓ Long Interval Nucleotide K-mer Scaffolder

LINKS: Scalable, alignment-free scaffolding of draft genomes with long reads

De novo phased assembly of the Vitis riparia grape genome

Genome sequencing and comparative analysis of Ficus benghalensis and Ficus religiosa species reveal evolutionary mechanisms of longevity


Data imputations library to preprocess datasets with missing data

RDIS: Random Drop Imputation With Self-Training for Incomplete Time Series Data

Deep Learning for Multivariate Time Series Imputation: A Survey

FragmGAN: generative adversarial nets for fragmentary data imputation and prediction


Generate and process BAM files from Illumina sequencing instrument files

Epigenome Mapping Reveals Distinct Modes of Gene Regulation and Widespread Enhancer Reprogramming by the Oncogenic Fusion Protein EWS-FLI1

Type I Interferon Signaling Disrupts the Hepatic Urea Cycle and Alters Systemic Metabolism to Suppress T Cell Function

Parental Selenium Nutrition Affects the One-Carbon Metabolism and the Hepatic DNA Methylation Pattern of Rainbow Trout (Oncorhynchus mykiss) in the Progeny

DNA methylation QTL analysis identifies new regulators of human longevity

From Western Asia to the Mediterranean Basin: Diversification of the Widespread Euphorbia nicaeensis Alliance (Euphorbiaceae)

Transcriptional, epigenetic and metabolic signatures in cardiometabolic syndrome defined by extreme phenotypes

Micronutrient supplementation affects DNA methylation in male gonads with potential intergenerational epigenetic inheritance involving the embryonic development through glutamate receptor-associated genes

Evolutionary dynamics of Euphorbia carniolica suggest a complex Plio-Pleistocene history of understorey species of deciduous forest in southeastern Europe

Gene-based whole genome sequencing meta-analysis of 250 circulating proteins in three isolated European populations

Integrative Study of Genotypic and Phenotypic Diversity in the Eurasian Orchid Genus Neotinea


Simultaneous Nuclear Instance Segmentation and Classification in H&E Histology Images.

U-Net: Convolutional Networks for Biomedical Image Segmentation

HoVer-Net: Simultaneous Segmentation and Classification of Nuclei in Multi-Tissue Histology Images

SegNet: A Deep Convolutional Encoder-Decoder Architecture for Image Segmentation

PanNuke Dataset Extension, Insights and Baselines

Benchmarking Self-Supervised Learning on Diverse Pathology Datasets

A Large-scale Synthetic Pathological Dataset for Deep Learning-enabled Segmentation of Breast Cancer

CoNIC Challenge: Pushing the Frontiers of Nuclear Detection, Segmentation, Classification and Counting

Scellseg: A style-aware deep learning tool for adaptive cell instance segmentation by contrastive fine-tuning

Development of an artificial intelligence-derived histologic signature associated with adjuvant gemcitabine treatment outcomes in pancreatic cancer

MRL: Learning to Mix with Attention and Convolutions


Python package for causal discovery based on LiNGAM.

On the Role of Sparsity and DAG Constraints for Learning Linear DAGs

Discovering contemporaneous and lagged causal relations in autocorrelated nonlinear time series datasets

Beware of the Simulated DAG! Causal Discovery Benchmarks May Be Easy to Game

Variational Causal Networks: Approximate Bayesian Inference over Causal Structures

Joint estimation of linear non-Gaussian acyclic models

Neural graphical modelling in continuous-time: consistency guarantees and algorithms

Analyzing relationships among ARMA processes based on non-Gaussianity of external influences

Symbiotic bacterial network structure involved in carbon and nitrogen metabolism of wood-utilizing insect larvae

MissDAG: Causal Discovery in the Presence of Missing Data with Continuous Additive Noise Models

A Survey on Causal Discovery Methods for I.I.D. and Time Series Data


A system for scientific simulation-based inference at scale.

Fast and credible likelihood-free cosmology with truncated marginal neural ratio estimation

Truncated Marginal Neural Ratio Estimation

Simulation-efficient marginal posterior estimation with swyft: stop wasting your precious time

Estimating the warm dark matter mass from strong lensing images with truncated marginal neural ratio estimation

Constraining the X-ray heating and reionization using 21-cm power spectra with Marginal Neural Ratio Estimation

Scalable inference with Autoregressive Neural Ratio Estimation

Detection is truncation: studying source populations with truncated marginal neural ratio estimation

Bayesian model comparison for simulation-based inference

One never walks alone: the effect of the perturber population on subhalo measurements in strong gravitational lenses

Towards reconstructing the halo clustering and halo mass function of N-body simulations using neural ratio estimation


Projection predictive variable selection

Sparsity information and regularization in the horseshoe and other shrinkage priors

Projective inference in high-dimensional problems: Prediction and feature selection

Bayesian Estimation of Gaussian Graphical Models with Predictive Covariance Selection

Latent space projection predictive inference


PyBullet CartPole and Quadrotor environments—with CasADi symbolic a priori dynamics—for learning-based control and RL

Safe Learning in Robotics: From Learning-Based Control to Safe Reinforcement Learning

Safe Exploration in Continuous Action Spaces

Safe-Control-Gym: A Unified Benchmark Suite for Safe Learning-Based Control and Reinforcement Learning in Robotics

SafeRL-Kit: Evaluating Efficient Reinforcement Learning Methods for Safe Autonomous Driving

Historical and Current Landscapes of Autonomous Quadrotor Control: An Early-Career Researchers’ Guide


QIIME 2 plugin supporting taxonomic classification

Optimizing taxonomic classification of marker-gene amplicon sequences with QIIME 2’s q2-feature-classifier plugin

Interpretations of Environmental Microbial Community Studies Are Biased by the Selected 16S rRNA (Gene) Amplicon Sequencing Pipeline

Geographical and Cultivar Features Differentiate Grape Microbiota in Northern Italy and Spain Vineyards

Experimental Inoculation of Coral Recruits With Marine Bacteria Indicates Scope for Microbiome Manipulation in Acropora tenuis and Platygyra daedalea

Arsenic behavior in groundwater in Hanoi (Vietnam) influenced by a complex biogeochemical network of iron, methane, and sulfur cycling

Changes in the Drinking Water Microbiome: Effects of Water Treatments Along the Flow of Two Drinking Water Treatment Plants in a Urbanized Area, Milan (Italy)

Effects of Zinc Pollution and Compost Amendment on the Root Microbiome of a Metal Tolerant Poplar Clone

Tibet plateau probiotic mitigates chromate toxicity in mice by alleviating oxidative stress in gut microbiota

Production of Naturally γ-Aminobutyric Acid-Enriched Cheese Using the Dairy Strains Streptococcus thermophilus 84C and Lactobacillus brevis DSM 32386

Optimizing taxonomic classification of marker gene amplicon sequences


Accelerated demonstrator of electromagnetic Particle Transport

Detector and Beamline Simulation for Next-Generation High Energy Physics Experiments

The Future of High Energy Physics Software and Computing

Offloading electromagnetic shower transport to GPUs

Challenges and opportunities integrating LLAMA into AdePT


FedJAX is a JAX-based open source library for Federated Learning simulations that emphasizes ease-of-use in research.

Communication-Efficient Learning of Deep Networks from Decentralized Data

A Field Guide to Federated Optimization

FedJAX: Federated learning simulation with JAX

Communication-Efficient Agnostic Federated Averaging

FLIX: A Simple and Communication-Efficient Alternative to Local Methods in Federated Learning

On Noisy Evaluation in Federated Hyperparameter Tuning


XCFun: A library of exchange-correlation functionals with arbitrary-order derivatives

The DIRAC code for relativistic molecular calculations

All-electron fully relativistic Kohn-Sham theory for solids based on the Dirac-Coulomb Hamiltonian and Gaussian-type functions

Environmental Effects with Frozen-Density Embedding in Real-Time Time-Dependent Density Functional Theory Using Localized Basis Functions

Journal of chemical theory and computation

Frozen-Density Embedding for including environmental effects in the
  Dirac-Kohn-Sham theory: an implementation based on density fitting and
  prototyping techniques

Interoperable Workflows by Exchanging Grid-Based Data between
  Quantum-Chemical Program Packages


HI-ML toolbox for deep learning for medical imaging and Azure integration

Making the Most of Text Semantics to Improve Biomedical Vision--Language Processing

MedKLIP: Medical Knowledge Enhanced Language-Image Pre-Training for X-ray Diagnosis

Knowledge-enhanced Visual-Language Pre-training on Chest Radiology Images

ChEX: Interactive Localization and Region Description in Chest X-rays

Enabling large-scale screening of Barrett’s esophagus using weakly supervised deep learning in histopathology


The Atmospheric Radiative Transfer Simulator

A New Halocarbon Absorption Model Based on HITRAN Cross‐Section Data and New Estimates of Halocarbon Instantaneous Clear‐Sky Radiative Forcing

Journal of Advances in Modeling Earth Systems


Proteomics search software with integrated calibration, PTM discovery, bottom-up, top-down and LFQ capabilities

O-Pair Search with MetaMorpheus for O-glycopeptide Characterization

Cleavable Cross-Linkers and Mass Spectrometry for the Ultimate Task of Profiling Protein–Protein Interaction Networks in Vivo

A solution to the long-standing problem of actin expression and purification

Combined proteomic and biochemical analyses redefine the consensus sequence requirement for epidermal growth factor-like domain hydroxylation

Targeted Proteomic Quantitation of NRF2 Signaling and Predictive Biomarkers in HNSCC

Lysosomal cathepsin D mediates endogenous mucin glycodomain catabolism in mammals

The annotation and function of the Parkinson’s and Gaucher disease-linked gene GBA1 has been concealed by its protein-coding pseudogene GBAP1

Characterization of protein isoform diversity in human umbilical vein endothelial cells via long-read proteogenomics

Recent Contributions of Proteomics to Our Understanding of Reversible Nε-Lysine Acylation in Bacteria


python Parameter EStimation TOolbox

A protocol for dynamic model calibration

Efficient gradient-based parameter estimation for dynamic models using qualitative data

pyPESTO: a modular and scalable tool for parameter estimation for dynamic models

Quantifying tissue growth, shape and collision via continuum models and Bayesian inference


The VerCors verification toolset for verifying parallel and concurrent software

Correct program parallelisations

International Journal on Software Tools for Technology Transfer (STTT)

Alpinist: An Annotation-Aware GPU Program Optimizer

Tools and Algorithms for the Construction and Analysis of Systems

Verification of Shared-Reading Synchronisers


Graphs for Everyone

ATOM: Commit Message Generation Based on Abstract Syntax Tree and Hybrid Ranking

A comprehensive study of bloated dependencies in the Maven ecosystem

neuPrint: Analysis Tools for EM Connectomics

CORE: Automating Review Recommendation for Code Changes

An automatically created novel bug dataset and its validation in bug prediction

GraphQ IR: Unifying the Semantic Parsing of Graph Query Languages with One Intermediate Representation

Towards Learning Instantiated Logical Rules from Knowledge Graphs

Network Platform for Tourism Sector: Transformation and Interpretation of Multifaceted Data

Towards a catalog of composite refactorings

GDsmith: Detecting Bugs in Graph Database Engines


Code and resources for "FC4 : Fully Convolutional Color Constancy with Confidence-weighted Pooling" (CVPR 2017)

FC^4: Fully Convolutional Color Constancy with Confidence-Weighted Pooling

CNN-Based Illumination Estimation with Semantic Information

Self-adaptive Single and Multi-illuminant Estimation Framework based on Deep Learning


Automatic Pavement Crack Detection Based on Structured Prediction with the Convolutional Neural Network

Defect Detection Methods for Industrial Products Using Deep Learning Techniques: A Review

Optimized deep encoder-decoder methods for crack segmentation

Pavement Crack Detection and Segmentation Method Based on Improved Deep Learning Fusion Model

Advances in Deep Concealed Scene Understanding

Improving the Accuracy of an R-CNN-Based Crack Identification System Using Different Preprocessing Algorithms

An Exploration of Recent Intelligent Image Analysis Techniques for Visual Pavement Surface Condition Assessment

Advances in deep learning methods for pavement surface crack detection and identification with visible light visual images

Intelligent Detection Method for Concrete Dam Surface Cracks Based on Two-Stage Transfer Learning

Deeper and Mixed Supervision for Salient Object Detection in Automated Surface Inspection


Traffic prediction is the task of predicting future traffic measurements (e.g. volume, speed, etc.) in a road network (graph), using historical data (timeseries).

DeepMove: Predicting Human Mobility with Attentional Recurrent Networks

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

Urban Traffic Prediction from Spatio-Temporal Data Using Deep Meta Learning

Traffic Flow Prediction via Spatial Temporal Graph Neural Network

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

On the Modeling of Traffic and Crowds: A Survey of Models, Speculations, and Perspectives

Traffic transformer: Capturing the continuity and periodicity of time series for traffic forecasting

Deep Sequence Learning with Auxiliary Information for Traffic Prediction

Hybrid Spatio-Temporal Graph Convolutional Network: Improving Traffic Prediction with Navigation Data

Spatiotemporal Adaptive Gated Graph Convolution Network for Urban Traffic Flow Forecasting

International Conference on Information and Knowledge Management

Graph Convolutional Networks with Kalman Filtering for Traffic Prediction

Advances in Geographic Information Systems

BusTr: Predicting Bus Travel Times from Real-Time Traffic


A simple and effective method for detecting out-of-distribution images in neural networks.

Enhancing The Reliability of Out-of-distribution Image Detection in Neural Networks

Classification-Reconstruction Learning for Open-Set Recognition

Unsupervised Out-of-Distribution Detection by Maximum Classifier Discrepancy

Multiscale Score Matching for Out-of-Distribution Detection

Hyperparameter-Free Out-of-Distribution Detection Using Softmax of Scaled Cosine Similarity

Entropic Out-of-Distribution Detection: Seamless Detection of Unknown Examples

IEEE transactions on neural networks and learning systems

Hyperdimensional Feature Fusion for Out-Of-Distribution Detection

READ: Aggregating Reconstruction Error into Out-of-distribution Detection

Task-agnostic Out-of-Distribution Detection Using Kernel Density Estimation

Hybrid Energy Based Model in the Feature Space for Out-of-Distribution Detection


BoolQ: Exploring the Surprising Difficulty of Natural Yes/No Questions

Proving Test Set Contamination in Black Box Language Models

Assessing the Brittleness of Safety Alignment via Pruning and Low-Rank
  Modifications

Universal Self-Adaptive Prompting

Examining User-Friendly and Open-Sourced Large GPT Models: A Survey on Language, Multimodal, and Scientific GPT Models

Calibrating Reasoning in Language Models with Internal Consistency


Semantic Entity Retrieval Toolkit

Neural information retrieval: at the end of the early years

Learning Latent Vector Spaces for Product Search

Towards Question-based Recommender Systems

PROCEEDINGS OF THE 43RD INTERNATIONAL ACM SIGIR CONFERENCE ON RESEARCH AND DEVELOPMENT IN INFORMATION RETRIEVAL (SIGIR '20)

Unsupervised, Efficient and Semantic Expertise Retrieval

Semantic Entity Retrieval Toolkit

Getting Started with Neural Models for Semantic Matching in Web Search

Structural Regularities in Text-based Entity Vector Spaces

International Conference on the Theory of Information Retrieval

Remedies against the Vocabulary Gap in Information Retrieval


PyTorch implementation of SimSiam https//arxiv.org/abs/2011.10566

Exploring Simple Siamese Representation Learning

Improved Baselines with Momentum Contrastive Learning

Representational Continuity for Unsupervised Continual Learning

The Challenges of Continuous Self-Supervised Learning

Learning Visual Representations via Language-Guided Sampling

GANORCON: Are Generative Models Useful for Few-shot Segmentation?

Rethinking the Representational Continuity: Towards Unsupervised Continual Learning.

An Investigation into Whitening Loss for Self-supervised Learning

Latent Diffusion Counterfactual Explanations

A Survey on Self-Supervised Representation Learning


[IMPORTANT: not for real data analysis, only for algorithm evaluation] fast and accurate alignment tool for PacBio and Nanopore long reads

Minimap2: pairwise alignment for nucleotide sequences

Analysis of Transcriptome and Epitranscriptome in Plants Using PacBio Iso-Seq and Nanopore-Based Direct RNA Sequencing

The genome and lifestage-specific transcriptomes of a plant-parasitic nematode and its host reveal susceptibility genes involved in trans-kingdom synthesis of vitamin B5

Catalytically inactive Cas9 impairs DNA replication fork progression to induce focal genomic instability

Characterization and T-DNA insertion sites identification of a multiple-branches mutant br in Betula platyphylla × Betula pendula

Whole-Genome Sequence of Monascus purpureus GB-01, an Industrial Strain for Food Colorant Production

CRISPR-Analytics (CRISPR-A): A platform for precise analytics and simulations for gene editing


An impulse response dataset for binaural synthesis of spatial audio systems on headphones

Audio Spatialisation for Headphones - Impulse Response Dataset


We introduce MKQA, an open-domain question answering evaluation set comprising 10k question-answer pairs aligned across 26 typologically diverse languages (260k question-answer pairs in total). The goal of this dataset is to provide a challenging benchmark for question answering quality across a wide set of languages. Please refer to our paper for details, MKQA: A Linguistically Diverse Benchmark for Multilingual Open Domain Question Answering

Unsupervised Cross-lingual Representation Learning at Scale

One Question Answering Model for Many Languages with Cross-lingual Dense Passage Retrieval

Cross-language Information Retrieval


Code for http://saliency.mit.edu/

What do different evaluation metrics tell us about saliency models?

Spatially Adaptive Computation Time for Residual Networks

How is Gaze Influenced by Image Transformations? Dataset and Model

Meaning guides attention in real-world scene images: Evidence from eye movements and meaning maps

BubbleView: a validation of a mouse-contingent interface for crowdsourcing image importance and tracking visual attention

ACM Transactions on Computer-Human Interaction

SalFBNet: Learning Pseudo-Saliency Distribution via Feedback Convolutional Networks

Center Bias Does Not Account for the Advantage of Meaning Over Salience in Attentional Guidance During Scene Viewing

Saliency prediction based on multi-channel models of visual processing

A Gated Fusion Network for Dynamic Saliency Prediction

Invariance Analysis of Saliency Models versus Human Gaze During Scene Free Viewing


Pytorch implementation of DiffusionNet for fast and robust learning on 3D surfaces like meshes or point clouds.

DiffusionNet: Discretization Agnostic Learning on Surfaces

DPFM: Deep Partial Functional Maps

Self-Supervised Learning for Multimodal Non-Rigid 3D Shape Matching

SRFeat: Learning Locally Accurate and Globally Consistent Non-Rigid Shape Correspondence

NCP: Neural Correspondence Prior for Effective Unsupervised Shape Matching

Understanding and Improving Features Learned in Deep Functional Maps

Shape Non-rigid Kinematics (SNK): A Zero-Shot Method for Non-Rigid Shape Matching via Unsupervised Functional Map Regularized Reconstruction

Generalizable Local Feature Pre-training for Deformable Shape Analysis


Learning Discrete Structures for Graph Neural Networks (TensorFlow implementation)

Variational Inference for Graph Convolutional Networks in the Absence of Graph Data and Adversarial Settings

Compact Graph Structure Learning via Mutual Information Compression

Graph Convolutional Networks based on manifold learning for semi-supervised image classification

A Comparative Study on Robust Graph Neural Networks to Structural Noises

GLAM: Graph Learning by Modeling Affinity to Labeled Nodes for Graph Neural Networks


PyTorch implementation of Trust Region Policy Optimization

Trust Region Policy Optimization

On-Policy Deep Reinforcement Learning for the Average-Reward Criterion

Transfer Reinforcement Learning across Homotopy Classes

Self-Imitation Learning from Demonstrations

First Order Optimization in Policy Space for Constrained Deep Reinforcement Learning.

Learning to Constrain Policy Optimization with Virtual Trust Region


Doc2VecC from the paper "Efficient Vector Representation for Documents through Corruption"

Self-Discriminative Learning for Unsupervised Document Embedding

North American Chapter of the Association for Computational Linguistics

Coherence-Based Distributed Document Representation Learning for Scientific Documents


code for performing active flow control of the 2D Karman street using Deep Reinforcement Learning

Artificial neural networks trained through deep reinforcement learning discover control strategies for active flow control

Accelerating deep reinforcement learning strategies of flow control through a multi-environment approach

Deep reinforcement learning in fluid mechanics: A promising method for both active flow control and shape optimization

水动力学研究与进展.B辑

An Embedded Feature Selection Framework for Control

Proceedings of the 28th ACM SIGKDD Conference on Knowledge Discovery and Data Mining


Data-driven discovery of coordinates and governing equations

Interpretable scientific discovery with symbolic regression: a review

Latent Space Symmetry Discovery

Certified data-driven physics-informed greedy auto-encoder simulator


State of the Art of Music Generation with Deep Learning and AI

Conditional LSTM-GAN for Melody Generation from Lyrics

ACM Transactions on Multimedia Computing, Communications, and Applications

Generating Polyphonic Music Using Tied Parallel Networks

Music Composition with Deep Learning: A Review


Scripts for batch rendering models using Blender. Tested with models from stanfords shapenet library.

FaceShifter: Towards High Fidelity And Occlusion Aware Face Swapping

ULIP: Learning a Unified Representation of Language, Images, and Point Clouds for 3D Understanding

Elastic-InfoGAN: Unsupervised Disentangled Representation Learning in Class-Imbalanced Data

Three-Dimensional Reconstruction from Single Image Base on Combination of CNN and Multi-Spectral Photometric Stereo

TriCoLo: Trimodal Contrastive Loss for Text to Shape Retrieval

Three-Dimensional Reconstruction with a Laser Line Based on Image In-Painting and Multi-Spectral Photometric Stereo


Interactive and object-oriented programming in Agda using coinductive types

Interactive programming in Agda – Objects and graphical user interfaces

Programming with monadic CSP-style processes in dependent type theory

Proceedings of the 1st International Workshop on Type-Driven Development

Modelling Bitcoin in Agda

Trace and Stable Failures Semantics for CSP-Agda


Processing and visualization tools for quantitative MRI data

Denoising of diffusion MRI using random matrix theory

Diffusion MRI noise mapping using random matrix theory.

Fast parallel image registration on CPU and GPU for diagnostic classification of Alzheimer's disease

Weighted linear least squares estimation of diffusion MRI parameters: Strengths, limitations, and pitfalls

Extended phase graphs: Dephasing, RF pulses, and echoes ‐ pure and simple

Journal of magnetic resonance imaging : JMRI

The importance of correcting for signal drift in diffusion MRI

Fast and accurate algorithm for the simulation of NMR spectra of large spin systems

Journal of magnetic resonance (San Diego, Calif. : 1997)

REKINDLE: Robust extraction of kurtosis INDices with linear estimation

Muscle Changes Detected with Diffusion-Tensor Imaging after Long-Distance Running

Diffusion‐tensor MRI reveals the complex muscle architecture of the human forearm


yolov5 + csl_label.(Oriented Object Detection)（Rotation Detection）（Rotated BBox）基于yolov5的旋转目标检测

On the Arbitrary-Oriented Object Detection: Classification based Approaches Revisited

Parallel Residual Bi-Fusion Feature Pyramid Network for Accurate Single-Shot Object Detection

Object Detection in Large-Scale Remote Sensing Images With a Distributed Deep Learning Framework

IEEE Journal of Selected Topics in Applied Earth Observations and Remote Sensing

Automatic Detection of Specific Constructions on a Large Scale Using Deep Learning in Very High Resolution Airborne Imagery

PFG-JOURNAL OF PHOTOGRAMMETRY REMOTE SENSING AND GEOINFORMATION SCIENCE

Automatic detection of aerial survey ground control points based on Yolov5-OBB


Repo for Chinese Medical ChatGLM 基于中文医学知识的ChatGLM指令微调

Instruction Tuning for Large Language Models: A Survey

A Survey of Large Language Models in Medicine: Principles, Applications, and Challenges

HuatuoGPT-II, One-stage Training for Medical Adaption of LLMs

Evaluating Large Language Models for Radiology Natural Language Processing

AI Hospital: Benchmarking Large Language Models in a Multi-agent Medical Interaction Simulator

MedChatZH: a Better Medical Adviser Learns from Better Instructions

A Survey on Medical Large Language Models: Technology, Application,
  Trustworthiness, and Future Directions

A Survey on Large Language Models from General Purpose to Medical
  Applications: Datasets, Methodologies, and Evaluations

The current status of large language models in summarizing radiology
  report impressions


The MATH Dataset (NeurIPS 2021)

Measuring Mathematical Problem Solving With the MATH Dataset

Explore-Instruct: Enhancing Domain-Specific Instruction Coverage through Active Exploration

Causal Prompting: Debiasing Large Language Model Prompting based on
  Front-Door Adjustment

Structural information in mathematical formulas for exercise difficulty prediction: a comparison of NLP representations

Workshop on Innovative Use of NLP for Building Educational Applications

Beyond Lines and Circles: Unveiling the Geometric Reasoning Gap in Large
  Language Models


Code release for Learning with Opponent-Learning Awareness and variations.

DiCE: The Infinitely Differentiable Monte-Carlo Estimator

Proximal Learning With Opponent-Learning Awareness

Normative Disagreement as a Challenge for Cooperative AI


Assessment of an In Silico Mechanistic Model for Proarrhythmia Risk Prediction Under the CiPA Initiative

Uncertainty Quantification Reveals the Importance of Data Variability and Experimental Design Considerations for in Silico Proarrhythmia Risk Assessment

A systematic strategy for estimating hERG block potency and its implications in a new cardiac safety paradigm

Introduction to in silico model for proarrhythmic risk assessment under the CiPA initiative.

Global Sensitivity Analysis of Ventricular Myocyte Model-Derived Metrics for Proarrhythmic Risk Assessment

Assessment of proarrhythmogenic risk for chloroquine and hydroxychloroquine using the CiPA concept

Assessment of Drug Proarrhythmicity Using Artificial Neural Networks With in silico Deterministic Model Outputs

Use of Patient Health Records to Quantify Drug-Related Pro-arrhythmic Risk

Application of Convolutional Neural Networks Using Action Potential Shape for In-Silico Proarrhythmic Risk Assessment

Validation of in silico biomarkers for drug screening through ordinal logistic regression


The ORBIT dataset is a collection of videos of objects in clean and cluttered scenes recorded by people who are blind/low-vision on a mobile phone. The dataset is presented with a teachable object recognition benchmark task which aims to drive few-shot learning on challenging real-world data.

ORBIT: A Real-World Few-Shot Dataset for Teachable Object Recognition

FiT: Parameter Efficient Few-shot Transfer Learning for Personalized and Federated Image Classification

Memory Efficient Meta-Learning with Large Images

Contextual Squeeze-and-Excitation for Efficient Few-Shot Image Classification


A single model that parses Universal Dependencies across 75 languages. Given a sentence, jointly predicts part-of-speech tags, morphology tags, lemmas, and dependency trees.

75 Languages, 1 Model: Parsing Universal Dependencies Universally

Cross-Lingual Lemmatization and Morphology Tagging with Two-Stage Multilingual BERT Fine-Tuning

Proceedings of the 16th Workshop on Computational Research in Phonetics, Phonology, and Morphology

Meta-Learning for Fast Cross-Lingual Adaptation in Dependency Parsing

AUTOLEX: An Automatic Framework for Linguistic Exploration


Cubic spline approximation (smoothing)

Data Reduction Using Statistical and Regression Approaches for Ice Velocity Derived by Landsat-8, Sentinel-1 and Sentinel-2

bletl ‐ A Python package for integrating BioLector microcultivation devices in the Design‐Build‐Test‐Learn cycle

bletl - A Python Package for Integrating Microbioreactors in the Design-Build-Test-Learn Cycle

Smoothing Splines for Discontinuous Signals


Spectral Clustering for Interstellar Molecular Emission Segmentation

The integrated properties of the molecular clouds from the JCMT CO(3–2) High-Resolution Survey

Monthly Notices of the Royal Astronomical Society

The SEDIGISM survey: molecular clouds in the inner Galaxy

SEDIGISM-ATLASGAL: dense gas fraction and star formation efficiency across the Galactic disc

The SEDIGISM survey: Molecular cloud morphology

Molecular clouds in M51 from high-resolution extinction mapping


Lightweight and Fast; RNA-seq quantification at the event-level

The changing paradigm of intron retention: regulation, ramifications and recipes

Differential contribution of transcriptomic regulatory layers in the definition of neuronal identity

Implications of Antigen Selection on T Cell-Based Immunotherapy

ASTool: An Easy-to-Use Tool to Accurately Identify Alternative Splicing Events from Plant RNA-Seq Data

International journal of molecular sciences


DCC uses output from the STAR read mapper to systematically detect back-splice junctions in next-generation sequencing data. DCC applies a series of filters and integrates data across replicate sets to arrive at a precise list of circRNA candidates.

An atlas of cortical circular RNA expression in Alzheimer disease brains demonstrates clinical and pathological associations

Global accumulation of circRNAs during aging in Caenorhabditis elegans

Circular RNAs: Methodological challenges and perspectives in cardiovascular diseases

Journal of cellular and molecular medicine

NOVA2 regulates neural circRNA biogenesis

Advances in circular RNAs and their role in glioma (Review)

circUSP42 Is Downregulated in Triple-Negative Breast Cancer and Associated With Poor Prognosis

Technology in cancer research & treatment

Reverse complementary matches simultaneously promote both back-splicing and exon-skipping

Computational approaches for circRNAs prediction and in silico characterization

circPLIN2 promotes clear cell renal cell carcinoma progression by binding IGF2BP proteins and miR-199a-3p


Empirical Review of Automated Analysis Tools on 47,587 Ethereum Smart Contracts

Zenodo (CERN European Organization for Nuclear Research)

Designing Secure Ethereum Smart Contracts: A Finite State Machine Based Approach

VeriSolid: Correct-by-Design Smart Contracts for Ethereum

Empirical Vulnerability Analysis of Automated Smart Contracts Security Testing on Blockchains

Tool Demonstration: FSolidM for Designing Secure Ethereum Smart Contracts


Toolset for SV simulation, comparison and filtering

Transient structural variations have strong effects on quantitative traits and reproductive isolation in fission yeast

Parliament2: Accurate structural variant calling at scale

DangerTrack: A scoring system to detect difficult-to-assess regions

Genomic variations and epigenomic landscape of the Medaka Inbred Kiyosu-Karlsruhe (MIKK) panel

Gossypium purpurascens genome provides insight into the origin and domestication of upland cotton

Mapping crossover events of mouse meiotic recombination by restriction fragment ligation-based Refresh-seq


Supplementary package for "Spatio-Temporal Statistics with R" by C.K. Wikle, A. Zammit-Mangion, and N. Cressie

Deep integro-difference equation models for spatio-temporal forecasting

Statistical Deep Learning for Spatial and Spatio-Temporal Data


Universal Deconvolution of Mass and Ion Mobility Spectra

Comparing Top-Down Proteoform Identification: Deconvolution, PrSM Overlap, and PTM Detection

Exposing the molecular heterogeneity of glycosylated biotherapeutics

DNA glycosylases provide antiviral defence in prokaryotes

Simultaneous Native Mass Spectrometry Analysis of Single and Double Mutants To Probe Lipid Binding to Membrane Proteins

bioRxiv : the preprint server for biology


Stand alone fMRI software suite for layer-fMRI analyses.

LayNii: A software suite for layer-fMRI

Layer-dependent functional connectivity methods

Mesoscopic in vivo human T2* dataset acquired using quantitative MRI at 7 Tesla.

Validating layer-specific VASO across species

Cortical depth-dependent human fMRI of resting-state networks using EPIK

A protocol for ultra-high field laminar fMRI in the human brain


HAKE-Action in PyTorch

PaStaNet: Toward Human Activity Knowledge Engine

HOI Analysis: Integrating and Decomposing Human-Object Interaction

HAKE: Human Activity Knowledge Engine

HAKE: A Knowledge Engine Foundation for Human Activity Understanding


Opportunistic Protocol Simulator

Simulating Opportunistic Networks: Survey and Future Directions

IEEE Communications Surveys and Tutorials

My Smartphone tattles: Considering Popularity of Messages in Opportunistic Data Dissemination

Opportunistic Networking Protocol Simulator for OMNeT++

Reactive User Behavior and Mobility Models


Diagnostics for HierArchical Regession Models

Should Dairy Cattle Be Trained to a Virtual Fence System as Individuals or in Groups?

Animals : an open access journal from MDPI

Behavioural Diversity Study in Bottlenose Dolphin (Tursiops truncatus) Groups and Its Implications for Welfare Assessments

Pathogen evasion of social immunity

Area, isolation and climate explain the diversity of mammals on islands worldwide

Detecting Ultra- and Circadian Activity Rhythms of Dairy Cows in Automatic Milking Systems Using the Degree of Functional Coupling—A Pilot Study

Influence of Soldiers on Exploratory Foraging Behavior in the Formosan Subterranean Termite, Coptotermes formosanus (Blattodea: Rhinotermitidae)

Examining the potential influence of crosslinguistic lexical similarity on word-choice transfer in L2 English


An automatic engine for predicting materials properties.

Big-Data Science in Porous Materials: Materials Genomics and Machine Learning

Benchmarking materials property prediction methods: the Matbench test set and Automatminer reference algorithm

A critical examination of compound stability predictions from machine-learned formation energies

High-throughput discovery of high Curie point two-dimensional ferromagnetic materials

AtomSets as a hierarchical transfer learning framework for small and large materials datasets


Everything within the Land model (Soil Plant Atmosphere Module, Land Hydrology, etc)

Accounting for canopy structure improves hyperspectral radiative transfer and sun-induced chlorophyll fluorescence representations in a new generation Earth System model

Testing stomatal models at the stand level in deciduous angiosperm and evergreen gymnosperm forests using CliMA Land (v0.1)

On the impact of canopy model complexity on simulated carbon, water, and solar-induced chlorophyll fluorescence fluxes

The Importance of Hyperspectral Soil Albedo Information for Improving Earth System Model Projections

Toward More Accurate Modeling of Canopy Radiative Transfer and Leaf Electron Transport in Land Surface Modeling

Journal of Advances in Modeling Earth Systems


A tokenizer for Icelandic text

The ParlaMint corpora of parliamentary proceedings

Miðeind's WMT 2021 submission

Constructing Multimodal Language Learner Texts Using LARA: Experiences with Nine Languages

PROCEEDINGS OF THE 12TH INTERNATIONAL CONFERENCE ON LANGUAGE RESOURCES AND EVALUATION (LREC 2020)

IceSum: An Icelandic Text Summarization Corpus

North American Chapter of the Association for Computational Linguistics

Facilitating Corpus Usage: Making Icelandic Corpora More Accessible for Researchers and Language Users

Tokenizer for Icelandic text


iMRMC: Software to do multi-reader multi-case analysis of reader studies

Can we reduce the workload of mammographic screening by automatic identification of normal exams with artificial intelligence? A feasibility study

Impact of artificial intelligence support on accuracy and reading time in breast tomosynthesis image interpretation: a multi-reader multi-case study

Validation of mitotic cell quantification via microscopy and multiple whole-slide scanners

Multireader sample size program for diagnostic studies: demonstration and methodology

Journal of medical imaging (Bellingham, Wash.)

Generalized Roe and Metz receiver operating characteristic model: analytic link between simulated decision scores and empirical AUC variances and covariances

Inter- and Intra-Observer Variability and the Effect of Experience in Cine-MRI for Adhesion Detection


A fully featured, pythonic library for representing and using quaternions

Geomstats: A Python Package for Riemannian Geometry in Machine Learning

ICLR 2021 Challenge for Computational Geometry & Topology: Design and Results

Introduction to Geometric Learning in Python with Geomstats

Proceedings of the Python in Science Conferences

RelMobNet: End-to-end relative camera pose estimation using a robust two-stage training


PeTar is a high-performance N-body code for modelling the evolution of star clusters and tidal streams, including the effect of galactic potential, dynamics of binary and hierarchical system, single and binary stellar evolution.

Compact binary formation in open star clusters - I. High formation efficiency of Gaia BHs and their multiplicities

Gravitational wave of intermediate-mass black holes in Population III star clusters

A tale of caution: the tails of NGC 752 are much longer than claimed

Monthly notices of the Royal Astronomical Society

The impact of massive stars and black holes on the fate of open star clusters and their tidal streams

The Spatial Distributions of Blue Main-sequence Stars in Magellanic Cloud Star Clusters

On the Origin of the Split Main Sequences of the Young Massive Cluster NGC 1856

SIRIUS Project – V. Formation of off-centre ionized bubbles associated with Orion Nebula Cluster

Compact Binary Formation in Open Star Clusters II: Difficulty of Gaia NS
  formation in low-mass star clusters

SIRIUS Project. IV. The formation history of the Orion Nebula Cluster
  driven by clump mergers

Black hole binary mergers in dense star clusters: the importance of primordial binaries


Plot structural variant signals from many BAMs and CRAMs

Samplot: a platform for structural variant visual validation and automated filtering

A Comprehensive Map of Mycobacterium tuberculosis Complex Regions of Difference

Drainage-structuring of ancestral variation and a common functional pathway shape limited genomic convergence in natural high- and low-predation guppies

Lager Yeast Design Through Meiotic Segregation of a Saccharomyces cerevisiae × Saccharomyces eubayanus Hybrid

Analysis of structural variation among inbred mouse strains

Visualization tools for human structural variations identified by whole-genome sequencing

Chromosome-level genome assembly and structural variant analysis of two laboratory yeast strains from the Peterhof Genetic Collection lineage

duphold: scalalable, depth-based annotation and curation of high-confidence structural variant calls

Transcriptional convergence after repeated duplication of an amino acid transporter gene leads to the independent emergence of the black husk/pericarp trait in barley and rice


Visualization of Functional Enrichment Result

Identification of prognostic immune-related genes in the tumor microenvironment of endometrial cancer

Hydroxysteroid 17-β dehydrogenase 13 variant increases phospholipids and protects against fibrosis in nonalcoholic fatty liver disease

Transcriptomic Responses to Thermal Stress and Varied Phosphorus Conditions in Fugacium kawagutii

SIRT6 is a key regulator of mitochondrial function in the brain

RNF31 inhibition sensitizes tumors to bystander killing by innate and adaptive immune cells

The androgen receptor is a therapeutic target in desmoplastic small round cell sarcoma

High Level of METTL7B Indicates Poor Prognosis of Patients and Is Related to Immunity in Glioma

A Liquid-Liquid Phase Separation-Related Gene Signature as Prognostic Biomarker for Epithelial Ovarian Cancer

Genome-Wide DNA Methylation and Gene Expression Profiles in Cows Subjected to Different Stress Level as Assessed by Cortisol in Milk

Transcriptome analysis reveals potential immune function-related regulatory genes/pathways of female Lubo goat submandibular glands at different developmental stages


R package for oceanographic processing

oce: an R package for Oceanographic Analysis


Pipeline for processing FASTQ data from an Illumina MiSeq to genotype human RNA viruses like HIV and hepatitis C

HIV-1 diversity considerations in the application of the Intact Proviral DNA Assay (IPDA)

Performance comparison of next generation sequencing analysis pipelines for HIV-1 drug resistance testing

Role of co-expressed APOBEC3F and APOBEC3G in inducing HIV-1 drug resistance

HIV Proviral Burden, Genetic Diversity, and Dynamics in Viremic Controllers Who Subsequently Initiated Suppressive Antiretroviral Therapy

Molecular Epidemiology of HIV-1 in Ghana: Subtype Distribution, Drug Resistance and Coreceptor Usage

Dry Panels Supporting External Quality Assessment Programs for Next Generation Sequencing-Based HIV Drug Resistance Testing

Quality Control of Next-Generation Sequencing-Based HIV-1 Drug Resistance Data in Clinical Laboratory Information Systems Framework

Validation of Variant Assembly Using HAPHPIPE with Next-Generation Sequence Data from Viruses

A Bioinformatic Pipeline for Monitoring of the Mutational Stability of Viral Drug Targets with Deep-Sequencing Technology

Validation of a Genotype-Independent Hepatitis C Virus Near-Whole Genome Sequencing Assay


Python bindings to Charlie Conroy's Flexible Stellar Population Synthesis (FSPS) Fortran code

MESA ISOCHRONES AND STELLAR TRACKS (MIST). I. SOLAR-SCALED MODELS

Deriving Physical Properties from Broadband Photometry with Prospector: Description of the Model and a Demonstration of its Accuracy Using 129 Galaxies in the Local Universe

Stellar Population Inference with Prospector

The Astrophysical Journal Supplement Series

The formation of submillimetre-bright galaxies from gas infall over a billion years

A Theory for the Variation of Dust Attenuation Laws in Galaxies

The IRX-β dust attenuation relation in cosmological galaxy formation simulations

A tale of two DIGs: The relative role of H II regions and low-mass hot evolved stars in powering the diffuse ionised gas (DIG) in PHANGS-MUSE galaxies

Full spectrum fitting with photometry in ppxf: stellar population versus dynamical masses, non-parametric star formation history and metallicity for 3200 LEGA-C galaxies at redshift z ≈ 0.8

Identifying Mergers Using Quantitative Morphologies in Zoom Simulations of High-Redshift Galaxies

Mass-to-light Ratios of Spatially Resolved Stellar Populations in M31


Flexible classic and NeurAl Retrieval Toolkit

Off the Beaten Path: Let's Replace Term-Based Retrieval with k-NN Search

International Conference on Information and Knowledge Management

A Systematic Evaluation of Transfer Learning and Pseudo-labeling with BERT-based Ranking Models

SIGIR '21 - PROCEEDINGS OF THE 44TH INTERNATIONAL ACM SIGIR CONFERENCE ON RESEARCH AND DEVELOPMENT IN INFORMATION RETRIEVAL

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

Flexible retrieval with NMSLIB and FlexNeuART

Exploring Classic and Neural Lexical Translation Models for Information Retrieval: Interpretability, Effectiveness, and Efficiency Benefits

Understanding Performance of Long-Document Ranking Models through Comprehensive Evaluation and Leaderboarding

Traditional IR rivals neural models on the MS MARCO Document Ranking Leaderboard


Linear Collider I/O

The International Linear Collider: Report to Snowmass 2021

HAL (Le Centre pour la Communication Scientifique Directe)

Strange quark as a probe for new physics in the Higgs sector

Performance of Julia for High Energy Physics Analyses

ILC Study Questions for Snowmass 2021

The mini-DST: a high-level LCIO format


Repository for the Framework for Accessing Changes To Sea-level (FACTS)


A python package to read and calibrate NOAA and Metop AVHRR GAC and LAC data

A global historical twice-daily (daytime and nighttime) land surface temperature dataset produced by Advanced Very High Resolution Radiometer observations from 1981 to 2021


Sample benchmark files for Hyperledger Caliper https://wiki.hyperledger.org/display/caliper

TradeChain: Decoupling Traceability and Identity in Blockchain enabled Supply Chains

Performance Overhead of Atomic Crosschain Transactions

QiOi: Performance Isolation for Hyperledger Fabric

An International Federal Hyperledger Fabric Verification Framework for Digital COVID-19 Vaccine Passport

A Journey Towards the Most Efficient State Database for Hyperledger Fabric

Improving Energy Efficiency of Permissioned Blockchains Using FPGAs

LLMChain: Blockchain-Based Reputation System for Sharing and Evaluating Large Language Models

Layer 2 Atomic Cross-Blockchain Function Calls


Some data analysis tools for working with historical PV solar time-series data sets.

Signal Processing on PV Time-Series Data: Robust Degradation Analysis Without Physical Models

Estimation of Soiling Losses in Unlabeled PV Data


Reverse Mode Automatic Differentiation for Julia

Don't Unroll Adjoint: Differentiating SSA-Form Programs

Competitive Gradient Descent

NLOptControl: A modeling language for solving optimal control problems

AbstractDifferentiation.jl: Backend-Agnostic Differentiable Programming in Julia

Locally Feasibly Projected Sequential Quadratic Programming for Nonlinear Programming on Arbitrary Smooth Constraint Manifolds


Comprehensive Open Source Library for Secure Multiparty Computation

Privacy Preserving Vertical Federated Learning for Tree-based Models

zksk: A Library for Composable Zero-Knowledge Proofs

Workshop on Privacy in the Electronic Society

Anonymized Counting of Nonstationary Wi-Fi Devices When Monitoring Crowds

Proceedings of the International Conference on Modeling Analysis and Simulation of Wireless and Mobile Systems on International Conference on Modeling Analysis and Simulation of Wireless and Mobile Systems

Privacy-friendly statistical counting for pedestrian dynamics


The AIPlan4EU Unified Planning Library

The 2023 International Planning Competition

Dealing with Numeric and Metric Time Constraints in PDDL3 via Compilation to Numeric Planning

THIRTY-EIGHTH AAAI CONFERENCE ON ARTIFICIAL INTELLIGENCE, VOL 38 NO 18


Conceptual 12M is a dataset containing (image-URL, caption) pairs collected for vision-and-language pre-training.

Conceptual 12M: Pushing Web-Scale Image-Text Pre-Training To Recognize Long-Tail Visual Concepts

Supervision Exists Everywhere: A Data Efficient Contrastive Language-Image Pre-training Paradigm

CyCLIP: Cyclic Contrastive Language-Image Pretraining

Multimodal Masked Autoencoders Learn Transferable Representations

NusaCrowd: Open Source Initiative for Indonesian NLP Resources

Multimodal foundation models are better simulators of the human brain


Geometric Vector Perceptrons --- a rotation-equivariant GNN for learning from biomolecular structure

Learning from Protein Structure with Geometric Vector Perceptrons

ATOM3D: Tasks On Molecules in Three Dimensions

Equivariant Graph Neural Networks for 3D Macromolecular Structure


PyTorch implementation of VQ-VAE + WaveNet by [Chorowski et al., 2019] and VQ-VAE on speech signals by [van den Oord et al., 2017]

WaveNet: A Generative Model for Raw Audio

Neural Discrete Representation Learning

Unsupervised speech representation learning using WaveNet autoencoders

IEEE/ACM Transactions on Audio, Speech, and Language Processing


Code for Federated Learning with Matched Averaging, ICLR 2020.

FedLab: A Flexible Federated Learning Framework

Auto-FedAvg: Learnable Federated Averaging for Multi-Institutional Medical Image Segmentation

Federated Learning with Position-Aware Neurons

Topology-aware Federated Learning in Edge Computing: A Comprehensive Survey


Publication-quality sequence logos in R

CRISPR-Cas9 cytidine and adenosine base editing of splice-sites mediates highly-efficient disruption of proteins in primary and immortalized cells

Profiling Thermus thermophilus Argonaute Guide DNA Sequence Preferences by Functional Screening

Helicobacter pylori Chronic Infection Selects for Effective Colonizers of Metaplastic Glands

Maternally-inherited anti-sense piRNAs antagonize transposon expression in teleost embryos


Malware Detection by Eating a Whole EXE

Non-Negative Networks Against Adversarial Attacks

MAB-Malware: A Reinforcement Learning Framework for Attacking Static Malware Classifiers

Quo Vadis: Hybrid Machine Learning Meta-Model based on Contextual and Behavioral Malware Representations


A simplified PyTorch implementation of Siamese networks for tracking: SiamFC, SiamRPN, SiamRPN++, SiamVGG, SiamDW, SiamRPN-VGG.

Fully-Convolutional Siamese Networks for Object Tracking

SiamRPN++: Evolution of Siamese Visual Tracking with Very Deep Networks

Deeper and Wider Siamese Networks for Real-Time Visual Tracking

SiamVGG: Visual Tracking using Deeper Siamese Networks


(JAIR'2022) A mini-scale reproduction code of the AlphaStar program. Note: the original AlphaStar is the AI proposed by DeepMind to play StarCraft II. JAIR = Journal of Artificial Intelligence Research.

On Efficient Reinforcement Learning for Full-length Game of StarCraft II

An Introduction of mini-AlphaStar

Rethinking of AlphaStar


source code of the paper Graphical Generative Adversarial Networks

Adversarially Learned Inference

ALICE: Towards Understanding Adversarial Learning for Joint Distribution Matching

From optimal transport to generative modeling: the VEGAN cookbook


MPNet: Masked and Permuted Pre-training for Language Understanding   https://arxiv.org/pdf/2004.09297.pdf

MASS: Masked Sequence to Sequence Pre-training for Language Generation

A Language Model-based Generative Classifier for Sentence-level Discourse Parsing

Proceedings of the 2021 Conference on Empirical Methods in Natural Language Processing

A generalized solution to verify authorship and detect style change in multi-authored documents

Proceedings of the International Conference on Advances in Social Networks Analysis and Mining

Temporal Cross-Attention for Dynamic Embedding and Tokenization of
  Multimodal Electronic Health Records


Official Implementation of "DialogLM: Pre-trained Model for Long Dialogue Understanding and Summarization."

Longformer: The Long-Document Transformer

UniLMv2: Pseudo-Masked Language Models for Unified Language Model Pre-Training

Multi-party Goal Tracking with LLMs: Comparing Pre-training, Fine-tuning, and Prompt Engineering

Annotating and Detecting Fine-grained Factual Errors for Dialogue Summarization


Labels and other data for the paper "Are we done with ImageNet?"

Are we done with ImageNet?

Characterizing and Improving the Robustness of Self-Supervised Learning through Background Augmentations

MM-SpuBench: Towards Better Understanding of Spurious Biases in Multimodal LLMs


Learning Plannable Representations with Causal InfoGAN

Procedure Planning in Instructional Videos

A Survey on Causal Reinforcement Learning


This is a repository for the paper on testing inductive bias with scaled-down RoBERTa models.

What do you learn from context? Probing for sentence structure in contextualized word representations

Learning Which Features Matter: RoBERTa Acquires a Preference for Linguistic Generalizations (Eventually)


Wave propagation modules for PyTorch.

Deep pre-trained FWI: where supervised learning meets the physics-informed neural networks

Revisit Geophysical Imaging in A New View of Physics-informed Generative Adversarial Learning

ω-FWI: Robust full-waveform inversion with Fourier-based metric


Code and data for Sato https://arxiv.org/abs/1911.06311.

TABBIE: Pretrained Representations of Tabular Data

Sato: Contextual Semantic Type Detection in Tables

KGLink: A Column Type Annotation Method that Combines Knowledge Graph and Pre-Trained Language Model


Real-Time Spherical Array Renderer for binaural reproduction in Python


MS MARCO(Microsoft Machine Reading Comprehension) is a large scale dataset focused on machine reading comprehension, question answering, and passage/document ranking

MS MARCO: A Human Generated MAchine Reading COmprehension Dataset

Pre-training for Ad-hoc Retrieval: Hyperlink is Also You Need

Are Neural Ranking Models Robust?


DRESS simplification model (EMNLP 2017) described in http://aclweb.org/anthology/D/D17/D17-1062.pdf

Sentence Simplification with Memory-Augmented Neural Networks

On the Helpfulness of Document Context to Sentence Simplification

International Conference on Computational Linguistics

Reducing Sequence Length by Predicting Edit Operations with Large Language Models

Gauging the Gap Between Human and Machine Text Simplification Through Analytical Evaluation of Simplification Strategies and Errors

Findings of the Association for Computational Linguistics: EACL 2023


A data package containing lexicons and dictionaries for text analysis

Identifying the sentiment styles of YouTube's vloggers

Examining UK drill music through sentiment trajectory analysis

Linguistic features and psychological states: A machine-learning based approach

LexScore: A Semantic Approach to Scoring Domain Specific Sentiment Lexicons


Fast computation of Krippendorff's alpha agreement measure in Python.

NuCLS: A scalable crowdsourcing approach and dataset for nucleus classification and segmentation in breast cancer

Assessing the Impact of Contextual Information in Hate Speech Detection

A versatile framework for resource-limited sentiment articulation, annotation, and analysis of short texts

Headline Generation: Learning from Decomposable Document Titles

Leveraging GPT-4 for Food Effect Summarization to Enhance Product-Specific Guidance Development via Iterative Prompting

Factual Accuracy is not Enough: Planning Consistent Description Order for Radiology Report Generation

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

A System for Worldwide COVID-19 Information Aggregation

Cross-Level Semantic Similarity for Serbian Newswire Texts

LREC 2022: THIRTEEN INTERNATIONAL CONFERENCE ON LANGUAGE RESOURCES AND EVALUATION

Goals as Reward-Producing Programs

Generative AI Search Engines as Arbiters of Public Knowledge: An Audit
  of Bias and Authority


FlowNet3D: Learning Scene Flow in 3D Point Clouds (CVPR 2019)

FLOT: Scene Flow on Point Clouds Guided by Optimal Transport

RMS-FlowNet++: Efficient and Robust Multi-Scale Scene Flow Estimation for Large-Scale Point Clouds

International Journal of Computer Vision


DTDL based ontology for Energy Grid


The RefinedWeb Dataset for Falcon LLM: Outperforming Curated Corpora with Web Data, and Web Data Only

Deduplicating Training Data Makes Language Models Better

A Survey on Data Selection for Language Models

The Responsible Foundation Model Development Cheatsheet: A Review of
  Tools & Resources


This repository contains code to quantitatively evaluate instruction-tuned models such as Alpaca and Flan-T5 on held-out tasks.

INSTRUCTEVAL: Towards Holistic Evaluation of Instruction-Tuned Large Language Models

Hyperparameter Optimization for Large Language Model Instruction-Tuning

Instruction-tuning Aligns LLMs to the Human Brain

UltraEval: A Lightweight Platform for Flexible and Comprehensive
  Evaluation for LLMs


R data package for annotating/converting Gene IDs

Transcriptional signature in microglia associated with Aβ plaque phagocytosis

Genetic Subgroups Inform on Pathobiology in Adult and Pediatric Burkitt Lymphoma


SOTA fast and robust ground segmentation using 3D point cloud (accepted in RA-L'21 w/ IROS'21)

ERASOR: Egocentric Ratio of Pseudo Occupancy-Based Dynamic Object Removal for Static 3D Point Cloud Map Building

International Conference on Robotics and Automation

Patchwork: Concentric Zone-based Region-wise Ground Segmentation with Ground Likelihood Estimation Using a 3D LiDAR Sensor

Patchwork++: Fast and Robust Ground Segmentation Solving Partial Under-Segmentation Using 3D Point Cloud

PaGO-LOAM: Robust Ground-Optimized LiDAR Odometry


Next generation event data ontology

Joint event extraction along shortest dependency paths using graph convolutional networks

Text Categorization for Conflict Event Annotation

Introducing an Interpretable Deep Learning Approach to Domain-Specific Dictionary Creation: A Use Case for Conflict Prediction

COfEE: A Comprehensive Ontology for Event Extraction from text

Creating Custom Event Data Without Dictionaries: A Bag-of-Tricks


A reading list for deep graph learning acceleration.

AliGraph: A Comprehensive Graph Neural Network Platform

HyGCN: A GCN Accelerator with Hybrid Architecture

PaGraph: Scaling GNN training on large graphs via computation-aware caching

GCNAX: A Flexible and Energy-efficient Accelerator for Graph Convolutional Neural Networks

International Symposium on High-Performance Computer Architecture

Hardware Acceleration of Graph Neural Networks

PROCEEDINGS OF THE 2020 57TH ACM/EDAC/IEEE DESIGN AUTOMATION CONFERENCE (DAC)

GE-SpMM: General-Purpose Sparse Matrix-Matrix Multiplication on GPUs for Graph Neural Networks

DGCL: an efficient communication library for distributed GNN training

PROCEEDINGS OF THE SIXTEENTH EUROPEAN CONFERENCE ON COMPUTER SYSTEMS (EUROSYS '21)

TinyGNN: Learning Efficient Graph Neural Networks

Accelerating Graph Sampling for Graph Machine Learning using GPUs

Understanding and bridging the gaps in current GNN performance optimizations

ACM SIGPLAN Symposium on Principles and Practice of Parallel Programming


PyTorch code for Learning Cooperative Visual Dialog Agents using Deep Reinforcement Learning

Learning Cooperative Visual Dialog Agents with Deep Reinforcement Learning

Offline RL for Natural Language Generation with Implicit Language Q Learning

Answerer in Questioner's Mind: Information Theoretic Approach to Goal-Oriented Visual Dialog

Improving Generative Visual Dialog by Answering Diverse Questions

Large-Scale Answerer in Questioner's Mind for Visual Dialog Question Generation


cisTopic: Probabilistic modelling of cis-regulatory topics from single cell epigenomics data

High-throughput sequencing of the transcriptome and chromatin accessibility in the same cell

Chromatin-accessibility estimation from single-cell ATAC-seq data with scOpen

Building gene regulatory networks from scATAC-seq and scRNA-seq using Linked Self-Organizing Maps

Cis-topic modelling of single-cell epigenomes

Matrix factorization and transfer learning uncover regulatory biology across multiple single-cell ATAC-seq data sets


PyTorch open-source toolbox for unsupervised or domain adaptive object re-ID.

Self-paced Contrastive Learning with Hybrid Memory for Domain Adaptive Object Re-ID


An open-source audio wake word (or phrase) detection framework with a focus on performance and simplicity.

Speech Model Pre-training for End-to-End Spoken Language Understanding

Training Keyword Spotters with Limited and Synthesized Speech Data

Using Speech Synthesis to Train End-to-End Spoken Language Understanding Models


a data-driven method for determining stellar parameters and abundances from stellar spectra

Label Transfer from APOGEE to LAMOST: Precise Stellar Parameters for 450,000 LAMOST Giants

Masses and Ages for 230,000 LAMOST Giants, via Their Carbon and Nitrogen Abundances

Exploring the Stellar Age Distribution of the Milky Way Bulge Using APOGEE

Fundamental Parameters of ∼30,000 M dwarfs in LAMOST DR1 Using Data-driven Spectral Modeling


Python library for CMA Evolution Strategy.

Warm Starting CMA-ES for Hyperparameter Optimization

Rethinking Optimization with Differentiable Simulation from a Global Perspective

cmaes : A Simple yet Practical Python Library for CMA-ES

CMA-ES with Learning Rate Adaptation: Can CMA-ES with Default Population Size Solve Multimodal and Noisy Problems?

Proceedings of the Genetic and Evolutionary Computation Conference

Quantum computer based feature selection in machine learning

An Optimization-based Baseline for Rigid 2D/3D Registration Applied to
  Spine Surgical Navigation Using CMA-ES

Variational Quantum Multi-Objective Optimization


IFCtoRDF is a set of reusable Java components that allows to parse IFC-SPF files and convert them into RDF graphs.

Analyzing Contextual Linking of Heterogeneous Information Models from the Domains BIM and UIM

ISPRS International Journal of Geo-Information

An Approach of Automatic SPARQL Generation for BIM Data Extraction

Including widespread geometry schemas into Linked Data-based BIM applied to built heritage

Proceedings of the Institution of Civil Engineers - Smart Infrastructure and Construction

Applying Knowledge Graphs as Integrated Semantic Information Model for the Computerized Engineering of Building Automation Systems

PRACTICAL EXAMPLES ON BIM-GIS INTEGRATION BASED ON SEMANTIC WEB TRIPLESTORES

The international archives of the photogrammetry, remote sensing and spatial information sciences/International archives of the photogrammetry, remote sensing and spatial information sciences

Automated extraction of attributes of IFC objects based on graph theory and SPARQL query

IOP Conference Series: Materials Science and Engineering


Tools for Flexible Spectroscopic Inference

Placing the Spotted T Tauri Star LkCa 4 on an HR Diagram

The SPHINX M-dwarf Spectral Grid. I. Benchmarking New Model Atmospheres to Derive Fundamental M-Dwarf Properties

Uniform Forward-modeling Analysis of Ultracool Dwarfs. I. Methodology and Benchmarking

Observationally Constraining the Starspot Properties of Magnetically Active M67 Sub-subgiant S1063

iancze/Starfish: ca. Czekala et al. 2015 release w/ Zenodo