code and data for the paper `Kernel Manifold Alignment for domain adaptation'

Kernel Manifold Alignment for Domain Adaptation

Multi-temporal and multi-source remote sensing image classification by nonlinear relative normalization

Concept Discovery for The Interpretation of Landscape Scenicness

Machine Learning and Knowledge Extraction


Self-Adaptive Training: beyond Empirical Risk Minimization

Deep Gamblers: Learning to Abstain with Portfolio Theory

Selective Classification via One-Sided Prediction

Self-Adaptive Training: Bridging Supervised and Self-Supervised Learning

Towards Better Selective Classification


AmpleGCG: Learning a Universal and Transferable Generator of Adversarial Attacks on Both Open and Closed LLM

Universal and Transferable Adversarial Attacks on Aligned Language Models

Catastrophic Jailbreak of Open-source LLMs via Exploiting Generation

AmpleGCG: Learning a Universal and Transferable Generative Model of
  Adversarial Suffixes for Jailbreaking Both Open and Closed LLMs


Robust Asymmetric Loss for Multi-Label Long-Tailed Learning

Focal Loss for Dense Object Detection

Asymmetric Loss For Multi-Label Classification

Simple and Robust Loss Design for Multi-Label Learning with Missing Labels


A Survey on Homomorphic Encryption Schemes: Theory and Implementation

Logistic regression model training based on the approximate homomorphic encryption

Privacy-Preserved Approximate Classification Based on Homomorphic Encryption

Mathematical and Computational Applications

Revisiting Fully Homomorphic Encryption Schemes


Pretrained SimCLRv2 models in Pytorch

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

Temperature as Uncertainty in Contrastive Learning

Revisiting Discriminative vs. Generative Classifiers: Theory and Implications

Do We Really Need to Learn Representations from In-domain Data for Outlier Detection?


[CVPR2021] Domain Consensus Clustering for Universal Domain Adaptation

Unknown-Aware Domain Adversarial Learning for Open-Set Domain Adaptation

Subsidiary Prototype Alignment for Universal Domain Adaptation

Memory-Assisted Sub-Prototype Mining for Universal Domain Adaptation


PoreBlazer (v4.0) source code, examples, and geometric properties of porous materials calculated for the subset of 12,000 structures from the CSD MOF.

Machine learning enables interpretable discovery of innovative polymers for gas separation membranes

MoloVol: an easy-to-use program for analyzing cavities, volumes and surface areas of chemical structures

Material Informatics with PoreBlazer v4.0 and CSD MOF Database

On the Estimation of the Molecular Inaccessible Volume and the Molecular Accessible Surface of a Ligand in Protein Ligand Systems

Exploring the Potential of Hierarchical Zeolite-Templated Carbon Materials for High-Performance Li-O2 Batteries: Insights from Molecular Simulations


Code for Global Convergence of Block Coordinate Descent in Deep Learning (ICML 2019)

Personalized On-Device E-health Analytics with Decentralized Block Coordinate Descent

Learning DNN networks using un-rectifying ReLU with compressed sensing application


A framework for automated black-box testing of RESTful APIs.

Automated black‐box testing of nominal and error scenarios in RESTful APIs

Software testing, verification & reliability

Testing RESTful APIs: A Survey

Open Problems in Fuzzing RESTful APIs: A Comparison of Tools

Automated Black-Box Testing of Mass Assignment Vulnerabilities in RESTful APIs

RestTestGen: An Extensible Framework for Automated Black-box Testing of RESTful APIs

IEEE International Conference on Software Maintenance and Evolution


Matlab routines for computing the Modulation Index and Comodulogram, as described in Tort et al., J Neurophysiol 2010

Visual evoked feedforward–feedback traveling waves organize neural activity across the cortical hierarchy in mice

Hippocampal-Prefrontal Interactions during Spatial Decision-Making

Oscillations support short latency co-firing of neurons during human episodic memory formation

Mouse mutants in schizophrenia risk genes GRIN2A and AKAP11 show EEG abnormalities in common with schizophrenia patients


Reparameterized Discrete Diffusion Models for Text Generation

Structured Denoising Diffusion Models in Discrete State-Spaces

A Reparameterized Discrete Diffusion Model for Text Generation

Unified Discrete Diffusion for Categorical Data


Prompt-learning methods used BERT4Keras (PET, EFL and NSP-BERT), both for Chinese and English.

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

Exploiting Cloze Questions for Few Shot Text Classification and Natural Language Inference

Entailment as Few-Shot Learner

NSP-BERT: A Prompt-based Few-Shot Learner through an Original Pre-training Task —— Next Sentence Prediction


Minimal implementation of adaptive gradient clipping (https://arxiv.org/abs/2102.06171) in TensorFlow 2.

Deep Residual Learning for Image Recognition

Very Deep Convolutional Networks for Large-Scale Image Recognition

Batch Normalization: Accelerating Deep Network Training by Reducing Internal Covariate Shift

High-Performance Large-Scale Image Recognition Without Normalization


Kosp2e: Korean Speech to English Translation Corpus

Open Korean Corpora: A Practical Report

Proceedings of Second Workshop for NLP Open Source Software (NLP-OSS)

mHuBERT-147: A Compact Multilingual HuBERT Model


Sparse-input neural networks

Sparse-Input Neural Networks for High-dimensional Nonparametric Regression and Classification

Weight Predictor Network with Feature Selection for Small Sample Tabular Biomedical Data

Ensembled sparse-input hierarchical networks for high-dimensional datasets

A phase transition for finding needles in nonlinear haystacks with LASSO artificial neural networks


Code and data for "Learning Compact Geometric Features"

The Perfect Match: 3D Point Cloud Matching with Smoothed Densities

Learning Compact Geometric Features

Performance Evaluation of Learned 3D Features

Performance Evaluation of 3D Descriptors Paired with Learned Keypoint Detectors


Systematic generalization test for CLEVR

CLOSURE: Assessing Systematic Generalization of CLEVR Models

Transformer Module Networks for Systematic Generalization in Visual Question Answering


MeLU: Meta-Learned User Preference Estimator for Cold-Start Recommendation

MAMO: Memory-Augmented Meta-Optimization for Cold-start Recommendation

Task-adaptive Neural Process for User Cold-Start Recommendation

A Semi-Personalized System for User Cold Start Recommendation on Music Streaming Apps

ColdNAS: Search to Modulate for User Cold-Start Recommendation

Representation Learning: Recommendation With Knowledge Graph via Triple-Autoencoder

Cross-Domain Meta-Learner for Cold-Start Recommendation

IEEE Transactions on Knowledge and Data Engineering

Contributions to Representation Learning with Graph Autoencoders and Applications to Music Recommendation


Lazy random walks for superpixel segmentation (IEEE TIP14)

Lazy Random Walks for Superpixel Segmentation

IEEE transactions on image processing : a publication of the IEEE Signal Processing Society

Superpixel Segmentation Using Gaussian Mixture Model

An Iterative Spanning Forest Framework for Superpixel Segmentation

Content-Based Superpixel Segmentation and Matching Using Its Region Feature Descriptors

IEICE Transactions on Information and Systems


Attention-based Deep Multiple Instance Learning

Dual-stream Multiple Instance Learning Network for Whole Slide Image Classification with Self-supervised Contrastive Learning

TransMIL: Transformer based Correlated Multiple Instance Learning for Whole Slide Image Classification

Prediction of heart transplant rejection from routine pathology slides with self-supervised deep learning

Analysis and Validation of Image Search Engines in Histopathology

Histopathology Slide Indexing and Search: Are We There Yet?

Prediction models for hormone receptor status in female breast cancer do not extend to males: further evidence of sex-based disparity in breast cancer


XL-mHG: A Semiparametric Test for Enrichment in Ranked Lists.

GO-PCA: An Unsupervised Method to Explore Gene Expression Data Using Prior Knowledge

The XL-mHG test for gene set enrichment

The XL-mHG Test For Enrichment: A Technical Report

The XL-mHG test for enrichment: Algorithms, bounds, and power


A Batch Normalized Inference Network Keeps the KL Vanishing Away

Improving Variational Autoencoder for Text Modelling with Timestep-Wise Regularisation


Survey on Emotional Body Gesture Recognition

ARBEE: Towards Automated Recognition of Bodily Expression of Emotion in the Wild

International journal of computer vision

Affect2MM: Affective Analysis of Multimedia Content Using Emotion Causality


Barcode demultiplex for Illumina I1, R1, R2 fastq.gz files

Targeting zonulin and intestinal epithelial barrier function to prevent onset of arthritis

Dynamics of dark fermentation microbial communities in the light of lactate and butyrate production

Discovery of synthetic lethal and tumor suppressor paralog pairs in the human genome

Impact of DNA Sequencing and Analysis Methods on 16S rRNA Gene Bacterial Community Analysis of Dairy Products

Sexual practices have a significant impact on the vaginal microbiota of women who have sex with women

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

Feeding with Sustainably Sourdough Bread Has the Potential to Promote the Healthy Microbiota Metabolism at the Colon Level

Dynamics and Complexity of Dark Fermentation Microbial Communities Producing Hydrogen From Sugar Beet Molasses in Continuously Operating Packed Bed Reactors

Dynamics of Gut Microbiota Recovery after Antibiotic Exposure in Young and Old Mice (A Pilot Study)

Changes in Soil Microbial Communities across an Urbanization Gradient: A Local-Scale Temporal Study in the Arid Southwestern USA


Predicting COVID-19 Pneumonia Severity on Chest X-ray with Deep Learning

COVID-MobileXpert: On-Device COVID-19 Patient Triage and Follow-up using Chest X-rays

COVID-19 Control by Computer Vision Approaches: A Survey

IEEE access : practical innovations, open solutions

COVID-MobileXpert: On-Device COVID-19 Screening using Snapshots of Chest X-Ray


This repository contains the code for the paper: Disentangling Factors of Variation with Cycle-Consistent Variational Auto-encoders (https://arxiv.org/abs/1804.10469), which was accepted at ECCV 2018.

Disentangling factors of variation in deep representations using adversarial training

Disentangling Factors of Variation with Cycle-Consistent Variational Auto-Encoders

Challenges in Disentangling Independent Factors of Variation

Learning ABCs: Approximate Bijective Correspondence for isolating factors of variation with weak supervision


Conservative Q learning in Jax

Soft Actor-Critic Algorithms and Applications

Conservative Q-Learning for Offline Reinforcement Learning

Cal-QL: Calibrated Offline RL Pre-Training for Efficient Online Fine-Tuning

Boosting Offline Reinforcement Learning via Data Rebalancing

Offline RL With Realistic Datasets: Heteroskedasticity and Support Constraints

Beyond Uniform Sampling: Offline Reinforcement Learning with Imbalanced Datasets

Train Once, Get a Family: State-Adaptive Balances for Offline-to-Online Reinforcement Learning


NIPS 2017 - Adversarial Learning

Improving Transferability of Adversarial Examples with Input Diversity

Evading Defenses to Transferable Adversarial Examples by Translation-Invariant Attacks

Nesterov Accelerated Gradient and Scale Invariance for Adversarial Attacks

Admix: Enhancing the Transferability of Adversarial Attacks

Improving Adversarial Transferability via Neuron Attribution-based Attacks

Learning Transferable Adversarial Examples via Ghost Networks

Frequency Domain Model Augmentation for Adversarial Attack

On the Effectiveness of Low Frequency Perturbations

Meta Gradient Adversarial Attack

Improving the Transferability of Adversarial Examples with Resized-Diverse-Inputs, Diversity-Ensemble and Region Fitting


A language detection software

Quilt-1M: One Million Image-Text Pairs for Histopathology

Benchmarking and Defending Against Indirect Prompt Injection Attacks on Large Language Models

Findings of the The RuATD Shared Task 2022 on Artificial Text Detection in Russian

If in a Crowdsourced Data Annotation Pipeline, a GPT-4

Proceedings of the CHI Conference on Human Factors in Computing Systems

VeriDark: A Large-Scale Benchmark for Authorship Verification on the Dark Web

A Comparative Study of Pretrained Language Models on Thai Social Text Categorization


Hierarchical Graph Network for Multi-hop Question Answering

QA4QG: Using Question Answering to Constrain Multi-Hop Question Generation

Analyzing the Effectiveness of the Underlying Reasoning Tasks in Multi-hop Question Answering

Enhancing text comprehension for Question Answering with Contrastive Learning

Workshop on Representation Learning for NLP

How Well Do Multi-hop Reading Comprehension Models Understand Date Information?


pywda Python package for simple access to world's protected areas


Easy-first dependency parser based on Hierarchical Tree LSTMs

Transition-Based Dependency Parsing with Stack Long Short-Term Memory

DyNet: The Dynamic Neural Network Toolkit

Increasing Return on Annotation Investment: The Automatic Construction of a Universal Dependency Treebank for Dutch

LSTM Easy-first Dependency Parsing with Pre-trained Word Embeddings and Character-level Word Embeddings in Vietnamese

PROCEEDINGS OF 2018 10TH INTERNATIONAL CONFERENCE ON KNOWLEDGE AND SYSTEMS ENGINEERING (KSE)

Multi-Model and Crosslingual Dependency Analysis

Proceedings of the CoNLL 2017 Shared Task: Multilingual Parsing from
          Raw Text to Universal Dependencies


Estimate distances to stars as done for the Gaia-DR2 distance catalogue

Estimating Distance from Parallaxes. IV. Distances to 1.33 Billion Stars in Gaia Data Release 2

Quiescent X-ray variability in the neutron star Be/X-ray transient GRO J1750−27

Photometric and Kinematic Study of the Open Clusters SAI 44 and SAI 45


MetricGAN: Generative Adversarial Networks based Black-box Metric Scores Optimization for Speech Enhancement (ICML 2019, with Travel awards)

MetricGAN+: An Improved Version of MetricGAN for Speech Enhancement

Improving Character Error Rate is Not Equal to Having Clean Speech: Speech Enhancement for ASR Systems with Black-Box Acoustic Models


Structural Deep Clustering Network

Deep Clustering for Unsupervised Learning of Visual Features

Structural Deep Clustering Network

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

A Comprehensive Survey on Community Detection With Deep Learning

Smoothness Sensor: Adaptive Smoothness-Transition Graph Convolutions for Attributed Graph Clustering

Pressure Sensor Placement in Water Supply Network Based on Graph Neural Network Clustering Method

Unsupervised Network Embedding Beyond Homophily

Dual Information Enhanced Multi-view Attributed Graph Clustering

TC-DWA:Text Clustering with Dual Word-Level Augmentation

Proceedings of the AAAI Conference on Artificial Intelligence


Source Code of GraRep

A Survey on Network Embedding

Network Representation Learning: A Survey

Network representation learning systematic review: ancestors and current development state

A Comprehensive Analytical Survey on Unsupervised and Semi-Supervised Graph Representation Learning Methods

Dual-Channel Heterogeneous Graph Network for Author Name Disambiguation

Semantic Random Walk for Graph Representation Learning in Attributed Graphs


A Contact-Implicit Trajectory Optimization Package

Contact-Implicit Trajectory Optimization Based on a Variable Smooth Contact Model and Successive Convexification

International Conference on Robotics and Automation

Tuning-Free Contact-Implicit Trajectory Optimization

A Comparative Analysis of Contact Models in Trajectory Optimization for Manipulation


Challenging BIG-Bench Tasks and Whether Chain-of-Thought Can Solve Them

LLMLingua: Compressing Prompts for Accelerated Inference of Large Language Models

Prompt Engineering a Prompt Engineer

Universal Self-Adaptive Prompting

Automatic Engineering of Long Prompts

UniGen: A Unified Framework for Textual Dataset Generation Using Large Language Models


Data and papers related to epigenetic clocks predicting age

DNA methylation-based biomarkers and the epigenetic clock theory of ageing

An epigenetic biomarker of aging for lifespan and healthspan

Epigenetic Predictor of Age

Aging of blood can be tracked by DNA methylation changes at just three CpG sites

DNA Methylation Clocks in Aging: Categories, Causes, and Consequences

Multi-tissue DNA methylation age predictor in mouse

Glycans Are a Novel Biomarker of Chronological and Biological Ages

The journals of gerontology. Series A, Biological sciences and medical sciences

Using DNA Methylation Profiling to Evaluate Biological Age and Longevity Interventions

Deep biomarkers of human aging: Application of deep neural networks to biomarker development

A new aging measure captures morbidity and mortality risk across diverse subpopulations from NHANES IV: A cohort study


The Third DIHARD Diarization Challenge

Domain-Dependent Speaker Diarization for the Third DIHARD Challenge


Video Feature Extraction Code for EMNLP 2020 paper "HERO: Hierarchical Encoder for Video+Language Omni-representation Pre-training"

Learning Transferable Visual Models From Natural Language Supervision

End-to-End Learning of Visual Representations from Uncurated Instructional Videos

Learning a Grammar Inducer from Massive Uncurated Instructional Videos


Code for the paper Deep Active Inference as Variational Policy Gradients.

Applications of the Free Energy Principle to Machine Learning and Neuroscience

Deconstructing deep active inference


Source code for the ICCV-2019 paper "Co-segmentation Inspired Attention Networks for Video-based Person Re-identification"

Omni-Scale Feature Learning for Person Re-Identification

Revisiting Temporal Modeling for Video-based Person ReID

Co-Segmentation Inspired Attention Networks for Video-Based Person Re-Identification

International Conference on Computer Vision

Co-segmentation Inspired Attention Module for Video-based Computer Vision Tasks


Code release for "Cycle Self-Training for Domain Adaptation" (NeurIPS 2021)

Make the U in UDA Matter: Invariant Consistency Learning for Unsupervised Domain Adaptation

DAC-MR: Data Augmentation Consistency Based Meta-Regularization for Meta-Learning


[NeurIPS 2020, Spotlight] State-Adversarial DQN (SA-DQN) for robust deep reinforcement learning

Robust Deep Reinforcement Learning against Adversarial Perturbations on State Observations

Whatever Does Not Kill Deep Reinforcement Learning, Makes It Stronger

CROP: Certifying Robust Policies for Reinforcement Learning through Functional Smoothing

DeepSplit: Scalable Verification of Deep Neural Networks via Operator Splitting

Real-time Adversarial Perturbations against Deep Reinforcement Learning Policies: Attacks and Defenses


Test-time Prompt Tuning (TPT) for zero-shot generalization in vision-language models (NeurIPS 2022))

Learning Transferable Visual Models From Natural Language Supervision

Learning to Prompt for Vision-Language Models

Conditional Prompt Learning for Vision-Language Models

Test-Time Prompt Tuning for Zero-Shot Generalization in Vision-Language Models

Neural Priming for Sample-Efficient Adaptation


[NeurIPS'20] Learning Black-Box Attackers with Transferable Priors and Query Feedback

Improving Black-box Adversarial Attacks with a Transfer-based Prior

Gradient Aligned Attacks via a Few Queries


Generating music with Vector Quantized Variational Autoencoders plus Scalable Sparse Transformer: "JukeBox". Code for inzva ai projects #5.

Neural Discrete Representation Learning

Jukebox: A Generative Model for Music

MuseGAN: Multi-track Sequential Generative Adversarial Networks for Symbolic Music Generation and Accompaniment

Attentional networks for music generation


Genealogical Estimation of Variant Age (GEVA)

Dating genomic variants and shared ancestry in population-scale sequencing data

Inference of Coalescence Times and Variant Ages Using Convolutional Neural Networks

Allele age estimators designed for whole genome datasets show only a modest decrease in accuracy when applied to whole exome datasets

bioRxiv : the preprint server for biology


BS-Seeker3: An Ultra-fast, Versatile Pipeline for Mapping Bisulfite-treated Reads.

Introduction to Single-Cell DNA Methylation Profiling Methods

BS-Seeker3: ultrafast pipeline for bisulfite sequencing

Bioinformatics and Machine Learning Approaches to Understand the Regulation of Mobile Genetic Elements


SPAN: Spatial Pyramid Attention Network for Image Manipulation Localization

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

IEEE transactions on pattern analysis and machine intelligence


Code for the paper "Contextualized Weak Supervision for Text Classification"

Meeting of the Association for Computational Linguistics

MEGClass: Extremely Weakly Supervised Text Classification via Mutually-Enhancing Text Granularities

XAI-CLASS: Explanation-Enhanced Text Classification with Extremely Weak Supervision

DDNAS: Discretized Differentiable Neural Architecture Search for Text Classification


ACM CHIL 2021: "Enabling Counterfactual Survival Analysis with Balanced Representations"

Adversarial Time-to-Event Modeling

SurvITE: Learning Heterogeneous Treatment Effects from Time-to-Event Data

Enabling counterfactual survival analysis with balanced representations

Proceedings of the Conference on Health, Inference, and Learning


A large-scale benchmark dataset for color-event based visual tracking

VisEvent: Reliable Object Tracking via Collaboration of Frame and Event Flows

Revisiting Color-Event based Tracking: A Unified Network, Dataset, and Metric

Event Stream-based Visual Object Tracking: A High-Resolution Benchmark Dataset and A Novel Baseline

Long-term Frame-Event Visual Tracking: Benchmark Dataset and Baseline


Code and model for the AI City Challenge (CVPR 2022) Track 3 Action Detection (Naturalistic Driving Action Recognition)

MViTv2: Improved Multiscale Vision Transformers for Classification and Detection

The 6th AI City Challenge

Stargazer: A Transformer-based Driver Action Detection System for Intelligent Transportation

2022 IEEE/CVF Conference on Computer Vision and Pattern Recognition Workshops (CVPRW)


A PyTorch implementation of "TasNet: Surpassing Ideal Time-Frequency Masking for Speech Separation" (see recipes in aps framework https://github.com/funcwj/aps)

Conv-TasNet: Surpassing Ideal Time–Frequency Magnitude Masking for Speech Separation

IEEE/ACM transactions on audio, speech, and language processing

PHASEN: A Phase-and-Harmonics-Aware Speech Enhancement Network

Time Domain Audio Visual Speech Separation

Improving speaker discrimination of target speech extraction with time-domain SpeakerBeam

Improving noise robust automatic speech recognition with single-channel time-domain enhancement network

End-to-end training of time domain audio separation and recognition

International Conference on Acoustics, Speech, and Signal Processing

DESNet: A Multi-channel Network for Simultaneous Speech Dereverberation, Enhancement and Separation

Multi-channel target speech extraction with channel decorrelation and target speaker adaptation

Attention-based scaling adaptation for target speech extraction


A Kotlin DSL for probabilistic programming.

Summingbird

Quantitative Information Flow with Monads in Haskell

Foundations of Probabilistic Programming

Fast Concurrent Data Sketches

Uncertainty Propagation in Data Processing Systems

Smooth estimates of multiple quantiles in dynamically varying data streams


Group Sparsity: The Hinge Between Filter Pruning and Decomposition for Network Compression

DHP: Differentiable Meta Pruning via HyperNetworks

Learning Filter Basis for Convolutional Neural Network Compression

The Heterogeneity Hypothesis: Finding Layer-Wise Differentiated Network Architectures


A set of scripts and functions for analyzing MeDIP-seq datasets

Assessment of Glyphosate Induced Epigenetic Transgenerational Inheritance of Pathologies and Sperm Epimutations: Generational Toxicology

Vinclozolin induced epigenetic transgenerational inheritance of pathologies and sperm epimutation biomarkers for specific diseases

Genome-wide CpG density and DNA methylation analysis method (MeDIP, RRBS, and WGBS) comparisons

Epigenetic inheritance of DNA methylation changes in fish living in hydrogen sulfide–rich springs

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

Sperm epimutation biomarkers of obesity and pathologies following DDT induced epigenetic transgenerational inheritance of disease

Epigenome-wide association study for glyphosate induced transgenerational sperm DNA methylation and histone retention epigenetic biomarkers for disease

Epigenetic transgenerational inheritance of testis pathology and Sertoli cell epimutations: generational origins of male infertility

Epigenome-wide association study for pesticide (Permethrin and DEET) induced DNA methylation epimutation biomarkers for specific transgenerational disease

Environmental health : a global access science source

Epigenome-wide association study for atrazine induced transgenerational DNA methylation and histone retention sperm epigenetic biomarkers for disease

Transgenerational sperm DMRs escape DNA methylation erasure during embryonic development and epigenetic inheritance


DeepSleepNet: A Model for Automatic Sleep Stage Scoring Based on Raw Single-Channel EEG

International Conference of the IEEE Engineering in Medicine and Biology Society

SeqSleepNet: End-to-End Hierarchical Recurrent Neural Network for Sequence-to-Sequence Automatic Sleep Staging

U-Time: A Fully Convolutional Network for Time Series Segmentation Applied to Sleep Staging


MT Evaluation in Many Languages via Zero-Shot Paraphrasing

Automatic Machine Translation Evaluation in Many Languages via Zero-Shot Paraphrasing

In-context Examples Selection for Machine Translation

Paraphrase Generation as Zero-Shot Multilingual Translation: Disentangling Semantic Similarity from Lexical and Syntactic Diversity

Bidimensional Leaderboards: Generate and Evaluate Language Hand in Hand

DEMETR: Diagnosing Evaluation Metrics for Translation

Language-agnostic Representation from Multilingual Sentence Encoders for Cross-lingual Similarity Estimation

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

Dialect-robust Evaluation of Generated Text

Not All Metrics Are Guilty: Improving NLG Evaluation by Diversifying References

NMTScore: A Multilingual Analysis of Translation-based Text Similarity Measures

OpinSummEval: Revisiting Automated Evaluation for Opinion Summarization


Repo with code for Ludii's built-in AIs.

Biasing MCTS with Features for General Games

Deep Learning for General Game Playing with Ludii and Polygames

Manipulating the Distributions of Experience used for Self-Play Learning in Expert Iteration


VAEs and nonlinear ICA: a unifying framework

Variational Autoencoders and Nonlinear ICA: A Unifying Framework

Identifying through Flows for Recovering Latent Representations


Statistical stability indices for LIME: Obtaining reliable explanations for machine learning models

OptiLIME: Optimized LIME Explanations for Diagnostic Computer Algorithms

A LIME-Based Explainable Machine Learning Model for Predicting the Severity Level of COVID-19 Diagnosed Patients


Codes for WWW'18 Paper-DeepMove: Predicting Human Mobility with Attentional Recurrent Network

Spatio-Temporal Urban Knowledge Graph Enabled Mobility Prediction

Human Mobility Modeling During the COVID-19 Pandemic via Deep Graph Diffusion Infomax

MobilityDL: A Review of Deep Learning From Trajectory Data


Code of Fair PCA algorithm introduced in the paper "The Price of Fair PCA: One Extra Dimension"

Efficient fair PCA for fair representation learning

Distributionally Robust Fair Principal Components via Geodesic Descents


MEDIQA-Chat Shared Tasks @ ACL-ClinicalNLP 2023

ACI-BENCH: a Novel Ambient Clinical Intelligence Dataset for Benchmarking Automatic Visit Note Generation

Overview of the MEDIQA-Chat 2023 Shared Tasks on the Summarization & Generation of Doctor-Patient Conversations

Proceedings of the 5th Clinical Natural Language Processing Workshop

WangLab at MEDIQA-Chat 2023: Clinical Note Generation from Doctor-Patient Conversations using Large Language Models

NewAgeHealthWarriors at MEDIQA-Chat 2023 Task A: Summarizing Short Medical Conversation with Transformers


OPT-IML: Scaling Language Model Instruction Meta Learning through the Lens of Generalization

StylePTB: A Compositional Benchmark for Fine-grained Controllable Text Style Transfer

Towards Zero-Shot Functional Compositionality of Language Models

Adapter-TST: A Parameter Efficient Method for Multiple-Attribute Text Style Transfer


incon - An R package for modelling the simultaneous consonance of musical chords

Simultaneous Consonance in Music Perception and Composition

Vocal similarity predicts the relative attraction of musical chords

Roughness modelling based on human auditory perception for sound quality evaluation of vehicle interior noise

Harmony perception by periodicity detection

Musical Features for Automatic Music Transcription Evaluation

Simultaneous consonance in the perception and composition of Western music


FlexCFL: A clustered federated learning framework based on TF2.0.  Support frameworks: FlexCFL, FedGroup, FedAvg, IFCA, FeSEM, et al.

Multi-center federated learning: clients clustering for better personalization

Flexible Clustered Federated Learning for Client-Level Data Distribution Shift

FedGroup: Efficient Federated Learning via Decomposed Similarity-Based Clustering


PSI-Sigma

Recurrent SRSF2 mutations in MDS affect both splicing and NMD

PSI-Sigma: a comprehensive splicing-detection method for short-read and long-read RNA-seq analysis

CsTT8 regulates anthocyanin accumulation in blood orange through alternative splicing transcription


Harmonic Convolutional Networks based on Discrete Cosine Transform

Harmonic Networks with Limited Training Samples

Harmonic Networks: Integrating Spectral Information into CNNs


Few-Shot Learning via Embedding Adaptation with Set-to-Set Functions

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

The Self-Optimal-Transport Feature Transform


Detect, classify, and track Rossby Wave Breaking (RWB) in weather and climate data.


This Toolbox contains E-measure, S-measure, weighted F & F-measure, MAE and PR curves or bar metrics for salient object detection.

Disentangled High Quality Salient Object Detection

Pyramidal Attention for Saliency Detection

Densely Deformable Efficient Salient Object Detection Network


This repository contains the code associated with our 2023 TMI paper "Latent Graph Representations for Critical View of Safety Assessment" and our MICCAI 2023 paper "Encoding Surgical Videos as Spatiotemporal Graphs for Object and Anatomy-Driven Reasoning".

Encoding Surgical Videos as Latent Spatiotemporal Graphs for Object and Anatomy-Driven Reasoning

MEDICAL IMAGE COMPUTING AND COMPUTER ASSISTED INTERVENTION, MICCAI 2023, PT IX

Optimizing latent graph representations of surgical scenes for unseen domain generalization


Are We Building on the Rock? On the Importance of Data Preprocessing for Code Summarization

M2TS: Multi-Scale Multi-Modal Approach Based on Transformer for Source Code Summarization

Multi-branch Attentive Transformer

RefBERT: A Two-Stage Pre-trained Framework for Automatic Rename Refactoring

MMF3: Neural Code Summarization Based on Multi-Modal Fine-Grained Feature Fusion

MESIA: Understanding and Leveraging Supplementary Nature of Method-level Comments for Automatic Comment Generation


Scattering GCN: overcoming oversmoothness in graph convolutional networks

Graph-based Semi-supervised Learning: A Comprehensive Review

Scattering GCN: Overcoming Oversmoothness in Graph Convolutional Networks

Overcoming Oversmoothness in Graph Convolutional Networks via Hybrid Scattering Networks


Measure redshifts and emission/absorption lines in 1D galaxy spectra.

Near infrared spectroscopy and star-formation histories of 3 <= z <= 4 quiescent galaxies

Quiescent Galaxies 1.5 Billion Years after the Big Bang and Their Progenitors

The Massive Ancient Galaxies at z > 3 NEar-infrared (MAGAZ3NE) Survey: Confirmation of Extremely Rapid Star Formation and Quenching Timescales for Massive Galaxies in the Early Universe

A Massive Quiescent Galaxy Confirmed in a Protocluster at z = 3.09

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

A population of faint, old, and massive quiescent galaxies at 3 < z < 4 revealed by JWST NIRSpec Spectroscopy

A hyper luminous starburst at z=4.72 magnified by a lensing galaxy pair
  at z=1.48

COSMOS2020: Discovery of a Protocluster of Massive Quiescent Galaxies at z = 2.77

Insights into the reionization epoch from cosmic-noon-C IV emitters in the VANDELS survey

The VANDELS ESO public spectroscopic survey: The spectroscopic measurements catalogue


AttacKG: Constructing Technique Knowledge Graph from Cyber Threat Intelligence Reports

EXTRACTOR: Extracting Attack Behavior from Threat Reports

AttacKG+:Boosting Attack Knowledge Graph Construction with Large Language Models


Remove CCS reads with remnant PacBio adapter sequences and convert outputs to a compressed .fastq (.fastq.gz).

Semi-automated assembly of high-quality diploid human reference genomes

Pangenome-based genome inference allows efficient and accurate genotyping across a wide spectrum of variant classes

The USDA-ARS Ag100Pest Initiative: High-Quality Genome Assemblies for Agricultural Pest Arthropod Research

A Draft Reference Genome Assembly of the Critically Endangered Black Abalone, Haliotis cracherodii

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


Code to implement "Echo from noise: synthetic ultrasound image generation using diffusion models for real image segmentation"

Semantic Image Synthesis via Diffusion Models


Deeply Supervised, Layer-wise Prediction-aware (DSLP) Transformer for Non-autoregressive Neural Machine Translation

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

Non-Autoregressive Translation with Layer-Wise Prediction and Deep Supervision

DePA: Improving Non-autoregressive Translation with Dependency-Aware Decoder


FRANK: Factuality Evaluation Benchmark

Understanding Factuality in Abstractive Summarization with FRANK: A Benchmark for Factuality Metrics

FactGraph: Evaluating Factuality in Summarization with Semantic Graph Representations

FactKB: Generalizable Factuality Evaluation using Language Models Enhanced with Factual Knowledge

Evaluating and Improving Factuality in Multimodal Abstractive Summarization

HaRiM^+: Evaluating Summary Quality with Hallucination Risk


Accelerating the deduplication and collapsing process for reads with Unique Molecular Identifiers (UMI). Heavily optimized for scalability and orders of magnitude faster than a previous tool.

Algorithms for efficiently collapsing reads with Unique Molecular Identifiers

Large-scale map of RNA binding protein interactomes across the mRNA life-cycle


Pipeline for generate Ks plots of transcriptome data.

A chromosome-scale genome sequence of pitaya (Hylocereus undatus) provides novel insights into the genome evolution and regulation of betalain biosynthesis

Phylogeny and multiple independent whole-genome duplication events in the Brassicales

Chromosome-level genome assembly of bunching onion illuminates genome evolution and flavor formation in Allium crops

Retrotransposon Proliferation Coincident with the Evolution of Dioecy in Asparagus

Genome Sequencing of Pleurozium schreberi: The Assembled and Annotated Draft Genome of a Pleurocarpous Feather Moss


[AAAI-2020] Official implementation for "Online Knowledge Distillation with Diverse Peers".

Peer Collaborative Learning for Online Knowledge Distillation

Overcoming Catastrophic Forgetting beyond Continual Learning: Balanced Training for Neural Machine Translation


A heuristic for listing almost-clique minimal separators of a graph

Hardness of Random Reordered Encodings of Parity for Resolution and CDCL


Keras Implementation Residual Attention Network

Deep Residual Learning for Image Recognition

Identity Mappings in Deep Residual Networks

Residual Attention Network for Image Classification


Approximate knockoffs and model-free variable selection.

Deep Knockoffs

Journal of the American Statistical Association

Deep Direct Likelihood Knockoffs

Multivariate rank via entropic optimal transport: sample efficiency and generative modeling

Normalizing Flows for Knockoff-free Controlled Feature Selection

Learning to increase the power of conditional randomization tests


A Fisher information matrix python package for GW detector networks.

Forecasting the Detection Capabilities of Third-generation Gravitational-wave Detectors Using GWFAST

GWFAST: A Fisher Information Matrix Python Code for Third-generation Gravitational-wave Detectors

Inferring, not just detecting: Metrics for high-redshift sources observed with third-generation gravitational-wave detectors

Gravitational-wave cosmology with dark sirens: state of the art and perspectives for 3G detectors

Proceedings of 41st International Conference on High Energy physics — PoS(ICHEP2022)

Measuring Mass and Radius of the Maximum-mass Nonrotating Neutron Star

Accurate standard siren cosmology with joint gravitational-wave and γ-ray burst observations

Multi-messenger prospects for black hole - neutron star mergers in the O4 and O5 runs


GSimp is a Gibbs sampler-based missing value imputation approach

GSimp: A Gibbs sampler based left-censored missing value imputation approach for metabolomics studies

Missing value imputation in proximity extension assay-based targeted proteomics data


Unsupervised Representation Learning for Singing Voice Separation

Learning Speaker Representations with Mutual Information

Unsupervised Interpretable Representation Learning for Singing Voice Separation

Revisiting Representation Learning for Singing Voice Separation with Sinkhorn Distances


Dataset + classifier tools to study social perception biases in natural language generation

The Woman Worked as a Babysitter: On Biases in Language Generation

BOLD: Dataset and Metrics for Measuring Biases in Open-Ended Language Generation

Proceedings of the 2021 ACM Conference on Fairness, Accountability, and Transparency

Societal Biases in Language Generation: Progress and Challenges

Towards Controllable Biases in Language Generation

Fairness Testing: A Comprehensive Survey and Analysis of Trends

An Analysis of the Effects of Decoding Algorithms on Fairness in Open-Ended Language Generation


A Pytorch implementation of the optimal transport kernel embedding

A Trainable Optimal Transport Embedding for Feature Aggregation and its Relationship to Attention


ENGINE: Energy-Based Inference Networks for Non-Autoregressive Machine Translation

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

Learning Approximate Inference Networks for Structured Prediction


All code related to the paper: "A Copula Statistic for Measuring Nonlinear Multivariate Dependence"

Copula index for detecting dependence and monotonicity between stochastic signals

A Copula Statistic for Measuring Nonlinear Dependence with Application to Feature Selection in Machine Learning

International Journal of Advanced Computer Science and Applications


pytorch version of face-alignment-training(ICCV2017)

How far are we from solving the 2D & 3D Face Alignment problem? (and a dataset of 230,000 3D facial landmarks)

International Conference on Computer Vision

Landmark Breaker: Obstructing DeepFake By Disturbing Landmark Extraction

Toward the Creation and Obstruction of DeepFakes

Handbook of Digital Face Manipulation and Detection


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

Investigating Monolingual and Multilingual BERT Models for Vietnamese Aspect Category Detection

ReINTEL: A Multimodal Data Challenge for Responsible Information Identification on Social Network Sites

SMTCE: A Social Media Text Classification Evaluation Benchmark and BERTology Models for Vietnamese

ViSoBERT: A Pre-Trained Language Model for Vietnamese Social Media Text Processing

ReINTEL Challenge 2020: Exploiting Transfer Learning Models for Reliable Intelligence Identification on Vietnamese Social Network Sites


Tools for manipulating (exporting, extracting) AgERA5 data


NAGphormer: A Tokenized Graph Transformer for Node Classification in Large Graphs

Graph Transformers for Large Graphs


[SIGGRAPH 2023] Composite Motion Learning with Task Control

A GAN-Like Approach for Physics-Based Imitation Learning and Interactive Control

Proceedings of the ACM on Computer Graphics and Interactive Techniques

AdaptNet: Policy Adaptation for Physics-Based Character Control


Public repository describing training and testing of AntiBERTa.

Deciphering the language of antibodies using self-supervised learning

A Hierarchical Training Paradigm for Antibody Structure-sequence Co-design

Accurate Prediction of Antibody Function and Structure Using Bio-Inspired Antibody Language Model


Repository of the paper "Context-adaptive Entropy Model for End-to-end Optimized Image Compression"

Variational image compression with a scale hyperprior

Learned Image Compression with Discretized Gaussian Mixture Likelihoods and Attention Modules

An End-to-End Joint Learning Scheme of Image Compression and Quality Enhancement with Improved Entropy Minimization

Selective compression learning of latent representations for variable-rate image compression


This repository contains the code for our upcoming paper An Investigation of End-to-End Models for Robust Speech Recognition at ICASSP 2021.

A Noise-Robust Self-Supervised Pre-Training Model Based Speech Representation Learning for Automatic Speech Recognition

IEEE International Conference on Acoustics, Speech, and Signal Processing

Joint Training of Speech Enhancement and Self-supervised Model for Noise-robust ASR

Wav2code: Restore Clean Speech Representations via Codebook Lookup for Noise-Robust ASR

deHuBERT: Disentangling Noise in a Self-supervised Model for Robust Speech Recognition


Code for the WSDM '20 paper, Learning Individual Causal Effects from Networked Observational Data.

A Survey on Causal Inference

Causal Knowledge Guided Societal Event Forecasting


APA Regression Net - Predict and Engineer Alternative Polyadenylation

A Deep Neural Network for Predicting and Engineering Alternative Polyadenylation

Alternative polyadenylation: methods, mechanism, function, and role in cancer

Journal of experimental & clinical cancer research : CR

A Two-Layered Targeting Mechanism Underlies Nuclear RNA Sorting by the Human Exosome.

Fast activation maximization for molecular sequence design

SCAPTURE: a deep learning-embedded pipeline that captures polyadenylation information from 3′ tag-based RNA-seq of single cells

Leveraging omic features with F3UTER enables identification of unannotated 3’UTRs for synaptic genes


Optimal transport on Multilayer networks

Optimal Transport in Multilayer Networks for Traffic Flow Optimization

Sustainable optimal transport in multilayer networks


The translation-invariant adversarial attack method to improve the transferability of adversarial examples.

Evading Defenses to Transferable Adversarial Examples by Translation-Invariant Attacks

Training Meta-Surrogate Model for Transferable Adversarial Attack

Adversarial Attack across Datasets

Adversarial Purification through Representation Disentanglement


Official Keras & PyTorch Implementation and Pre-trained Models for Semantic Genesis - MICCAI 2020

Transferable Visual Words: Exploiting the Semantics of Anatomical Patterns for Self-Supervised Learning

Learning Semantics-enriched Representation via Self-discovery, Self-classification, and Self-restoration

Universal and Extensible Language-Vision Models for Organ Segmentation and Tumor Detection from Abdominal Computed Tomography


Advanced EEG Statistics

Fixation-related Brain Potentials during Semantic Integration of Object–Scene Information

Cortical maturation from childhood to adolescence is reflected in resting state EEG signal complexity

Individual spindle detection and analysis in high-density recordings across the night and in thalamic stroke

lmeEEG: Mass linear mixed-effects modeling of EEG data with crossed random effects

Vestibular loss disrupts visual reactivity in the alpha EEG rhythm

Nocturnal Brain Activity Differs with Age and Sex: Comparisons of Sleep EEG Power Spectra Between Young and Elderly Men, and Between 60–80-Year-Old Men and Women


今日头条中文新闻（文本）分类数据集

CLUE: A Chinese Language Understanding Evaluation Benchmark

ERNIE 3.0: Large-scale Knowledge Enhanced Pre-training for Language Understanding and Generation

Towards artificial general intelligence via a multimodal foundation model

ERNIE 3.0 Titan: Exploring Larger-scale Knowledge Enhanced Pre-training for Language Understanding and Generation

WenLan 2.0: Make AI Imagine via a Multimodal Foundation Model.

Multitask Pre-training of Modular Prompt for Chinese Few-Shot Learning

GlyphCRM: Bidirectional Encoder Representation for Chinese Character with its Glyph

A Text classification algorithm based on topic model and convolutional neural network

Does Chinese BERT Encode Word Structure?

Label Oriented Hierarchical Attention Neural Network for Short Text Classification

Academic Journal of Engineering and Technology Science


This repo contains the dataset for the EMNLP 2022 paper "Why Do You Feel This Way? Summarizing Triggers of Emotions in Social Media Posts"

OASum: Large-Scale Open Domain Aspect-based Summarization

Unsupervised Extractive Summarization of Emotion Triggers


CoFloCo is a static analysis tool written in prolog to infer automatically symbolic complexity bounds of imperative and recursive programs.

Complexity and Resource Bound Analysis of Imperative Programs Using Difference Constraints

Difference Constraints: An adequate Abstraction for Complexity Analysis of Imperative Programs


Code for the paper "Knowledge-driven Data Construction for Zero-shot Evaluation in Commonsense Question Answering" (AAAI 2021)

CAR: Conceptualization-Augmented Reasoner for Zero-Shot Commonsense Question Answering

MARS: Benchmarking the Metaphysical Reasoning Abilities of Language
  Models with a Multi-task Evaluation Dataset

Are Visual-Linguistic Models Commonsense Knowledge Bases?

International Conference on Computational Linguistics


Sequence-to-sequence models for AMR parsing and generation

Neural AMR: Sequence-to-Sequence Models for Parsing and Generation

Structural Neural Encoders for AMR-to-text Generation

Improving Neural Machine Translation with AMR Semantic Graphs

Using Semantic Role Labeling to Improve Neural Machine Translation

LREC 2022: THIRTEEN INTERNATIONAL CONFERENCE ON LANGUAGE RESOURCES AND EVALUATION


PyTorch code for the paper "Curriculum Graph Co-Teaching for Multi-target Domain Adaptation" (CVPR2021)

Deep Hashing Network for Unsupervised Domain Adaptation

Deeper, Broader and Artier Domain Generalization

Curriculum Graph Co-Teaching for Multi-Target Domain Adaptation

Co-Teaching for Unsupervised Domain Adaptation and Expansion


The Business Scene Dialogue corpus

Overview of the 8th Workshop on Asian Translation

Overview of the 7th Workshop on Asian Translation

Designing the Business Conversation Corpus

Overview of the 9th Workshop on Asian Translation

Document-aligned Japanese-English Conversation Parallel Corpus

Improving NMT via Filtered Back Translation


Official repository for "Action-Based Conversations Dataset: A Corpus for Building More In-Depth Task-Oriented Dialogue Systems"

"Do you follow me?": A Survey of Recent Approaches in Dialogue State Tracking

Improving Generalization in Task-oriented Dialogues with Workflows and Action Plans

Unsupervised Learning of Hierarchical Conversation Structure


Japanese Moral Foundations Dictionary (J-MFD)

Development and validation of the Japanese Moral Foundations Dictionary

Morality-Based Assertion and Homophily on Social Media: A Cultural Comparison Between English and Japanese Languages

Appraisal of the Fairness Moral Foundation Predicts the Language Use Involving Moral Issues on Twitter Among Japanese


Mapping individual differences across brain network structure to function and behavior with connectome embedding

Automated scoring across different modalities

Workshop on Innovative Use of NLP for Building Educational Applications

Seeing Social: A Neural Signature for Conscious Perception of Social Interactions

Analyzing Cognitive Plausibility of Subword Tokenization

Cross-lingual Dataless Classification for Languages with Small Wikipedia Presence

MT Metrics Correlate with Human Ratings of Simultaneous Speech Translation

Avoiding Conflict: When Speaker Coordination Does Not Require Conceptual Agreement


GenMap - Fast and Exact Computation of Genome Mappability

GenMap: ultra-fast computation of genome mappability

Genetic Barriers to Historical Gene Flow between Cryptic Species of Alpine Bumblebees Revealed by Comparative Population Genomics

Low mutation rate in epaulette sharks is consistent with a slow rate of evolution in sharks

GenMap: Fast and Exact Computation of Genome Mappability

Pan‐Cancer Single‐Nucleus Total RNA Sequencing Using snHH‐Seq


Python package for graph-based clustering and semi-supervised learning

Poisson Learning: Graph Based Semi-Supervised Learning At Very Low Label Rates

Weighted Nonlocal Laplacian on Interpolation from Sparse Data

Simplified Energy Landscape for Modularity Using Total Variation

Hamilton-Jacobi equations on graphs with applications to semi-supervised learning and data depth

An Incremental Reseeding Strategy for Clustering

A Fast MBO Scheme for Multiclass Data Classification

Scale Space and Variational Methods in Computer Vision

Digital Fingerprinting of Microstructures


This repository contains the main baselines introduced in WSSTG (ACL 2019).

Faster R-CNN: Towards Real-Time Object Detection with Region Proposal Networks

Quo Vadis, Action Recognition? A New Model and the Kinetics Dataset

Finding Action Tubes

Weakly-Supervised Spatio-Temporally Grounding Natural Sentence in Video


A Pytorch implementation of DeepCrack and RoadNet projects.

Predicting Depth, Surface Normals and Semantic Labels with a Common Multi-Scale Convolutional Architecture

Crack Detection as a Weakly-Supervised Problem: Towards Achieving Less Annotation-Intensive Crack Detectors

Weakly-Supervised Crack Detection

TrueDeep: A systematic approach of crack detection with less data

Revealing the Underlying Patterns: Investigating Dataset Similarity, Performance, and Generalization


An R package for open-channel hydraulics


Dose response networks (DRNets) are a method for learning to estimate individual dose-response curves for multiple parametric treatments from observational data using neural networks.

A Survey on Causal Inference

Learning Counterfactual Representations for Estimating Individual Dose-Response Curves

THIRTY-FOURTH AAAI CONFERENCE ON ARTIFICIAL INTELLIGENCE, THE THIRTY-SECOND INNOVATIVE APPLICATIONS OF ARTIFICIAL INTELLIGENCE CONFERENCE AND THE TENTH AAAI SYMPOSIUM ON EDUCATIONAL ADVANCES IN ARTIFICIAL INTELLIGENCE

Estimating the Effects of Continuous-valued Interventions using Generative Adversarial Networks

Transfer Learning on Heterogeneous Feature Spaces for Treatment Effects Estimation

Benchmarking Heterogeneous Treatment Effect Models through the Lens of Interpretability


An automated assembly pipeline for microbial genomes

Staphylococcus aureus from patients with chronic rhinosinusitis show minimal genetic association between polyp and non-polyp phenotypes

Completing the Genome Sequence of Chlamydia pecorum Strains MC/MarsBar and DBDeUG: New Insights into This Enigmatic Koala (Phascolarctos cinereus) Pathogen

Comparative genomics of Nocardia seriolae reveals recent importation and subsequent widespread dissemination in mariculture farms in the South Central Coast region, Vietnam


Official Repository for our CVPRW (MAI'21) paper.

Fast Deep Multi-patch Hierarchical Network for Nonhomogeneous Image Dehazing

Stacked Deep Multi-Scale Hierarchical Network for Fast Bokeh Effect Rendering from a Single Image

Depth-aware blending of smoothed images for Bokeh effect generation

Journal of Visual Communication and Image Representation


Entropy production rate is maximized in non-contractile actomyosin

In Situ Fabrication of Constraints for Multicellular Micro‐Spheroids Using Two‐Photon Lithography

Meeting in the Middle: Towards Successful Multidisciplinary Bioimage Analysis Collaboration

Microarchitected Compliant Scaffolds of Pyrolytic Carbon for 3D Muscle Cell Growth


MVIN: Learning Multiview Items for Recommendation, SIGIR 2020

RippleNet: Propagating User Preferences on the Knowledge Graph for Recommender Systems

International Conference on Information and Knowledge Management

Knowledge Graph Convolutional Networks for Recommender Systems

WEB CONFERENCE 2019: PROCEEDINGS OF THE WORLD WIDE WEB CONFERENCE (WWW 2019)

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


COMIC: This is the code repo of our TMM2019 work titled "COMIC: Towards a Compact Image Captioning Model with Attention".

Bottom-Up and Top-Down Attention for Image Captioning and Visual Question Answering

Self-critical Sequence Training for Image Captioning

A Theoretically Grounded Application of Dropout in Recurrent Neural Networks

COMIC: Toward A Compact Image Captioning Model With Attention


This package helps fisheries scientists collect growth data from calcified structures and back-calculate estimated lengths at previous ages. The package is intended to replace much of the functionality provided by the now out-dated fishBC software.


Dataset and code for paper: ``ROAD-R: The Autonomous Driving Dataset with Logical Requirements''

Machine Learning with Requirements: a Manifesto


AbLang: A language model for antibodies

AbLang: an antibody language model for completing antibody sequences

A Hierarchical Training Paradigm for Antibody Structure-sequence Co-design

Do Domain-Specific Protein Language Models Outperform General Models on Immunology-Related Tasks?


ShapleyVIC: Shapley Variable Importance Cloud for Interpretable Machine Learning

Shapley variable importance clouds for interpretable machine learning

Shapley variable importance cloud for interpretable machine learning

A novel interpretable machine learning system to generate clinical risk scores: An application for predicting early mortality or unplanned readmission in a retrospective cohort study


Entropic Optimal Transport Benchmark (NeurIPS 2023).

Building the Bridge of Schrödinger: A Continuous Entropic Optimal Transport Benchmark

Entropic (Gromov) Wasserstein Flow Matching with GENOT

Light Schrödinger Bridge


Forward and Inverse Radiative Transport using the Adding-Doubling method

Multiwavelength tissue-mimicking phantoms with tunable vessel pulsation

Methodology development and evaluation of optical properties characterisation of small size tissue samples

Universal Theory of Light Scattering of Randomly Oriented Particles: A Fluctuational-Electrodynamics Approach for Light Transport Modeling in Disordered Nanostructures


A pipeline for identifying indel derived neoantigens using RNA-Seq data

Main Strategies for the Identification of Neoantigens

ScanNeo: identifying indel-derived neoantigens using RNA-Seq data

Integration of Omics Data Sources to Inform Mechanistic Modeling of Immune‐Oncology Therapies: A Tutorial for Clinical Pharmacologists

Computational cancer neoantigen prediction: current status and recent advances

Integrated protocol for exitron and exitron-derived neoantigen identification using human RNA-seq data with ScanExitron and ScanNeo

Protecting Tumors by Preventing Human Papilloma Virus Antigen Presentation: Insights from Emerging Bioinformatics Algorithms


Interpolating natural cubic splines. Includes batching, GPU support, support for missing values, evaluating derivatives of the spline, and backpropagation.

ClimODE: Climate and Weather Forecasting with Physics-informed Neural
  ODEs

Proceedings of the 17th International Meeting on Fully 3D Image Reconstruction in Radiology and Nuclear Medicine.

Optimizing CT Scan Geometries With and Without Gradients


Python interface to Global Diffuse Sky Models (GDSM) for the radio sky between 10 MHz - 5 THz

Improved Constraints on the 21 cm EoR Power Spectrum and the X-Ray Heating of the IGM with HERA Phase I Observations

Cleaning foregrounds from single-dish 21 cm intensity maps with Kernel principal component analysis

Monthly notices of the Royal Astronomical Society

The Green Bank North Celestial Cap Survey. VII. 12 New Pulsar Timing Solutions

System design and calibration of SITARA—a global 21 cm short spacing interferometer prototype

Publications of the Astronomical Society of Australia

On the Spin Period Distribution of Millisecond Pulsars

Global Sky Models can Improve Flux Estimates in Pulsar and FRB Studies

Effects of model incompleteness on the drift-scan calibration of radio telescopes

The Green Bank North Celestial Cap Survey. VIII. 21 New Pulsar Timing Solutions

Probing the Global 21 cm Background by Velocity-induced Dipole and Quadrupole Anisotropies

A renewed search for radio emission from the variable γ-ray pulsar PSR J2021+4026


Stellar binary light curve synthesis tool

DISCOVERY OF THE OPTICAL COUNTERPARTS TO FOUR ENERGETIC FERMI MILLISECOND PULSARS

An irradiated brown-dwarf companion to an accreting white dwarf

MULTIBAND STUDIES OF THE OPTICAL PERIODIC MODULATION IN THE X-RAY BINARY SAX J1808.4–3658 DURING ITS QUIESCENCE AND 2008 OUTBURST

A Dense Companion to the Short-period Millisecond Pulsar Binary PSR J0636+5128

Neutron star mass estimates from gamma-ray eclipses in spider millisecond pulsar binaries

The long-term evolution of the X-ray pulsar XTE J1814-338: A receding jet contribution to the quiescent optical emission?

Mid-UV studies of the transitional millisecond pulsars XSS J12270-4859 and PSR J1023+0038 during their radio pulsar states

Monthly Notices of the Royal Astronomical Society

Irradiated but not eclipsed, the case of PSR J0610-2100


Official Implementation of the Paper "MAGNet: Motif-Agnostic Generation of Molecules from Shapes"

Automatic Chemical Design Using a Data-Driven Continuous Representation of Molecules

Junction Tree Variational Autoencoder for Molecular Graph Generation

Learning to Extend Molecular Scaffolds with Structural Motifs

Molecule Generation by Principal Subgraph Mining and Assembling


An Easy-to-Use Wrapper for the Spectral Synthesis Code Synspec

The Extreme CNO-enhanced Composition of the Primitive Iron-poor Dwarf Star J0815+4729

TLUSTY and SYNSPEC Users's Guide IV: Upgraded Versions 208 and 54

Opacity for realistic 3D MHD simulations of cool stellar atmospheres

The Shapes of Stellar Spectra

A Possible Surviving Companion of the SN Ia in the Galactic SNR G272.2-3.2


Build a recommendation system from scratch

Deep & Cross Network for Ad Click Predictions

xDeepFM: Combining Explicit and Implicit Feature Interactions for Recommender Systems

Sampling-Bias-Corrected Neural Modeling for Large Corpus Item Recommendations

RECSYS 2019: 13TH ACM CONFERENCE ON RECOMMENDER SYSTEMS

MaskNet: Introducing Feature-Wise Multiplication to CTR Ranking Models by Instance-Guided Mask

FinalMLP: An Enhanced Two-Stream MLP Model for CTR Prediction


Differentiable Quantum Chemistry (only Differentiable Density Functional Theory and Hartree Fock at the moment)

Learning the exchange-correlation functional from nature with fully differentiable density functional theory

DQC: a Python program package for Differentiable Quantum Chemistry


:gift:[ChatGPT4MTevaluation] ErrorAnalysis Prompt for MT Evaluation in ChatGPT

Chain-of-Thought Prompting Elicits Reasoning in Large Language Models

Large Language Models Are State-of-the-Art Evaluators of Translation Quality

Error Analysis Prompting Enables Human-Like Translation Evaluation in Large Language Models: A Case Study on ChatGPT

Toward Human-Like Evaluation for Natural Language Generation with Error Analysis


RascalC: A Fast Code for Galaxy Covariance Matrix Estimation

RASCALC: a jackknife approach to estimating single- and multitracer galaxy covariance matrices

First detection of the BAO signal from early DESI data

Validation of semi-analytical, semi-empirical covariance matrices for two-point correlation function for Early DESI data

DESI 2024 III: Baryon Acoustic Oscillations from Galaxies and Quasars

HOD-Dependent Systematics for Luminous Red Galaxies in the DESI 2024 BAO Analysis

OSTI OAI (U.S. Department of Energy Office of Scientific and Technical Information)

ELG Spectroscopic Systematics Analysis of the DESI Data Release 1


Food and Agriculture Biomass Input-Output Tables


Systematic Analysis for Quantification of Expression

Meta-Analysis of RNA Sequencing Data of Arabidopsis and Rice under Hypoxia

Meta-Analysis of Oxidative Transcriptomes in Insects

Systematic Functional Annotation Workflow for Insects


Pytorch Implementation of Urban Flow Magnifier (UrbanFM), KDD-19

UrbanFM: Inferring Fine-Grained Urban Flows

Fine-Grained Urban Flow Inference

Road Network Guided Fine-Grained Urban Traffic Flow Inference

Spatiotemporal Implicit Neural Representation as a Generalized Traffic
  Data Learner


Pytorch implementation of baseline models of KQA Pro, a large-scale dataset of complex question answering over knowledge base.

BART: Denoising Sequence-to-Sequence Pre-training for Natural Language Generation, Translation, and Comprehension

Modeling Relational Data with Graph Convolutional Networks

KQA Pro: A Dataset with Explicit Compositional Programs for Complex Question Answering over Knowledge Base

How Proficient Are Large Language Models in Formal Languages? An In-Depth Insight for Knowledge Base Question Answering


MFannot is a program for the annotation of mitochondrial and plastid genomes

Mitochondrial genome annotation with MFannot: a critical analysis of gene identification and gene model prediction

Comparative Population Genomics Analysis of the Mammalian Fungal Pathogen Pneumocystis

A microbial eukaryote with a unique combination of purple bacteria and green algae as endosymbionts

Mitochondrial genomes of two parasitic Cuscuta species lack clear evidence of horizontal gene transfer and retain unusually fragmented ccmFC genes

Chloroplast Genomes for Five Skeletonema Species: Comparative and Phylogenetic Analysis

Revealing the high variability on nonconserved core and mobile elements of Austropuccinia psidii and other rust mitochondrial genomes

Genomic Characterization of Parengyodontium torokii sp. nov., a Biofilm-Forming Fungus Isolated from Mars 2020 Assembly Facility

RecombineX: A generalized computational framework for automatic high-throughput gamete genotyping and tetrad-based recombination analysis

Comparative analysis of full-length mitochondrial genomes of five Skeletonema species reveals conserved genome organization and recent speciation

Comparative Analysis of Chloroplast Genomes of Seven Chaetoceros Species Revealed Variation Hotspots and Speciation Time


Deep learning for deforestation classification and forecasting in satellite imagery


Code for the CRAC 2021 paper "On Generalization in Coreference Resolution" (Best short paper award)

Learning to Ignore: Long Document Coreference with Bounded Memory Neural Networks

DORE: Document Ordered Relation Extraction based on Generative Framework

Dual Cache for Long Document Neural Coreference Resolution

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


LEfSe determines the features (organisms, clades, operational taxonomic units, genes, or functions)     most likely to explain differences between classes by coupling standard tests for statistical significance with additional tests encoding     biological consistency and effect relevance.

Intermittent hypoxia is involved in gut microbial dysbiosis in type 2 diabetes mellitus and obstructive sleep apnea-hypopnea syndrome

Akkermansia muciniphila supplementation prevents cognitive impairment in sleep-deprived mice by modulating microglial engulfment of synapses

Assessment of Changes in the Oral Microbiome That Occur in Dogs with Periodontal Disease

Akkermansia muciniphila Alters Gut Microbiota and Immune System to Improve Cardiovascular Diseases in Murine Model

Ursolic Acid Ameliorates Spinal Cord Injury in Mice by Regulating Gut Microbiota and Metabolic Changes

Mucosal bacterial dysbiosis in patients with nodular lymphoid hyperplasia in the terminal ileum

Xinnaokang improves cecal microbiota and lipid metabolism to target atherosclerosis

The impact of gut microbiome enterotypes on ulcerative colitis: identifying key bacterial species and revealing species co-occurrence networks using machine learning

Oral Microbiota Profile in a Group of Anti-AChR Antibody–Positive Myasthenia Gravis Patients

Canagliflozin alters the gut, oral, and ocular surface microbiota of patients with type 2 diabetes mellitus


Repo for R package to query and download WFD data from the EA Catchment Data Explorer site


Adversarial attacks and adversarial robustness in computational pathology

Deep learning-based phenotyping reclassifies combined hepatocellular-cholangiocarcinoma

Predicting microsatellite instability and key biomarkers in colorectal cancer from H&E-stained images: Achieving SOTA predictive performance with fewer data using Swin Transformer

Time to Embrace Natural Language Processing (NLP)-based Digital Pathology: Benchmarking NLP- and Convolutional Neural Network-based Deep Learning Pipelines

Deep learning for dual detection of microsatellite instability and POLE mutations in colorectal cancer histopathology


Security analysis tool for EVM bytecode. Supports smart contracts built for Ethereum, Hedera, Quorum, Vechain, Roostock, Tron and other EVM-compatible blockchains.

Scilla: a Smart Contract Intermediate-Level LAnguage

Exploiting The Laws of Order in Smart Contracts

Lolisa: Formal Syntax and Semantics for a Subset of the Solidity Programming Language

SAFEVM: A Safety Verifier for Ethereum Smart Contracts

FEther: An Extensible Definitional Interpreter for Smart-Contract Verifications in Coq

A Revisit on Blockchain-based Smart Contract Technology


Create BIOM-format tables (http://biom-format.org) from Kraken output (http://ccb.jhu.edu/software/kraken/, https://github.com/DerrickWood/kraken).

Secrets of the Hospital Underbelly: Patterns of Abundance of Antimicrobial Resistance Genes in Hospital Wastewater Vary by Specific Antimicrobial and Bacterial Family

Dental Calculus as a Tool to Study the Evolution of the Mammalian Oral Microbiome

A mouse model of occult intestinal colonization demonstrating antibiotic-induced outgrowth of carbapenem-resistant Enterobacteriaceae

Cold Acclimation in Brachypodium Is Accompanied by Changes in Above-Ground Bacterial and Fungal Communities

Shotgun metagenomics of fecal samples from children in Peru reveals frequent complex co-infections with multiple Campylobacter species

Characterization of Boxwood Shoot Bacterial Communities and Potential Impact from Fungicide Treatments

Microbiota and Resistome Analysis of Colostrum and Milk from Dairy Cows Treated with and without Dry Cow Therapies

Driving forces shaping the microbial ecology in meat packing plants

An in vitro model for studies of attenuation of antibiotic-inhibited growth of Aggregatibacter actinomycetemcomitans Y4 by polyamines.

Changes in the type 2 diabetes gut mycobiome associate with metformin treatment across populations


An implementation of Microsoft's "FastSpeech 2: Fast and High-Quality End-to-End Text to Speech"

STUDIES: Corpus of Japanese Empathetic Dialogue Speech Towards Friendly Voice Agent

Acoustic Modeling for End-to-End Empathetic Dialogue Speech Synthesis Using Linguistic and Prosodic Contexts of Dialogue History

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

vTTS: visual-text to speech

Multi-Task Adversarial Training Algorithm for Multi-Speaker Neural Text-to-Speech


Multi-Zone Galactic Chemical Evolution Codes.  Extension of NuPyCEE

Validating Semi-analytic Models of High-redshift Galaxy Formation Using Radiation Hydrodynamical Simulations

Metallicity-dependent nucleosynthetic yields of Type Ia supernovae originating from double detonations of sub-M_Ch white dwarfs

Stochastic Chemical Evolution of Radioactive Isotopes with a Monte Carlo Approach

A New Model for Electron-capture Supernovae in Galactic Chemical Evolution

Galactic Chemical Evolution of Radioactive Isotopes with an s-process Contribution

Enrichment of the Galactic disc with neutron-capture elements: Mo and Ru

Chemical Evolution of Fluorine in the Milky Way

Observational constraints on the origin of the elements – VI. Origin and evolution of neutron-capture elements as probed by the Gaia-ESO survey


XDSME: XDS Made Easier

Design of protein-binding proteins from the target structure alone

KAMO: towards automated data processing for microcrystals

Acta crystallographica. Section D, Structural biology

Protein X-ray Crystallography and Drug Discovery

MXCuBE2: the dawn of MXCuBE Collaboration

X-ray data processing

Comparison of helical scan and standard rotation methods in single-crystal X-ray data collection strategies

A Ca2+-regulated deAMPylation switch in human and bacterial FIC proteins

Study of the DnaB:DciA interplay reveals insights into the primary mode of loading of the bacterial replicative helicase

PROXIMA-1 beamline for macromolecular crystallography measurements at Synchrotron SOLEIL

Enabling Aromatic Hydroxylation in a Cytochrome P450 Monooxygenase Enzyme through Protein Engineering


A framework for nonlinear continuous-time regression

A large-scale study of the effects of word frequency and predictability in naturalistic reading

North American Chapter of the Association for Computational Linguistics

Comparison of Structural Parsers and Neural Language Models as Surprisal Estimators

Deconvolutional Time Series Regression: A Technique for Modeling Temporally Diffuse Effects

Empirical Methods in Natural Language Processing

CDRNN: Discovering Complex Dynamics in Human Language Processing

Meeting of the Association for Computational Linguistics

Word Frequency and Predictability Dissociate in Naturalistic Reading

Open mind : discoveries in cognitive science

A Deep Learning Approach to Analyzing Continuous-Time Systems

A Deep Learning Approach to Analyzing Continuous-Time Cognitive Processes


A comprehensive benchmark for Graph Structure Learning.

Iterative Deep Graph Learning for Graph Neural Networks: Better and Robust Node Embeddings

Graph-Revised Convolutional Network

Compact Graph Structure Learning via Mutual Information Compression

SE-GSL: A General and Effective Graph Structure Learning Framework through Structural Entropy Optimization

OpenGSL: A Comprehensive Benchmark for Graph Structure Learning


A GenePattern module for running the ssGSEA method

Dissecting the DNA binding landscape and gene regulatory network of p63 and p53

Transcription factor RFX7 governs a tumor suppressor network in response to p53 and stress

Integration of bulk RNA sequencing and single-cell analysis reveals a global landscape of DNA damage response in the immune environment of Alzheimer’s disease


How to predict extreme events in climate using rare event algorithms and modern tools of machine learning

Probabilistic forecasts of extreme heatwaves using convolutional neural networks in a regime of lack of data

Robust intra-model teleconnection patterns for extreme heatwaves

Extreme heatwave sampling and prediction with analog Markov chain and comparisons with deep learning


GUI for OPEM library

OPEM : Open Source PEM Cell Simulation Tool


KUL/UZ NeuroImaging Suite. A set of tools for brain and spine MRI analysis.

Left Frontal White Matter Links to Rhythm Processing Relevant to Speech Production in Apraxia of Speech

Neurobiology of language (Cambridge, Mass.)

T1w/FLAIR ratio standardization as a myelin marker in MS patients

Comparative validation of automated presurgical tractography based on constrained spherical deconvolution and diffusion tensor imaging with direct electrical stimulation

A comparison of diffusion MRI presurgical tractography techniques with intraoperative mapping-based validation


Evaluation kit for the HEAR Benchmark

HEAR: Holistic Evaluation of Audio Representations

Masked Spectrogram Modeling using Masked Autoencoders for Learning General-purpose Audio Representation

BYOL-S: Learning Self-supervised Speech Representations by Bootstrapping

Self-Supervised Audio Teacher-Student Transformer for Both Clip-Level and Frame-Level Tasks

Audio Barlow Twins: Self-Supervised Audio Representation Learning

Cacophony: An Improved Contrastive Audio-Text Model

Masked Autoencoders with Multi-Window Local-Global Attention Are Better Audio Learners


reimplementation of the DFT-D3 program

Long-range Corrected Fragment Molecular Orbital Density-Functional Tight-binding Method for Excited States in Large Molecular Systems

CO Adsorption on the Surface of MgO from Periodic Coupled-Cluster Theory with Local Natural Orbitals: Adding to the Consensus


Matlab code to generate distributed power flow problems.

Distributed Power Flow and Distributed Optimization -- Formulation, Solution, and Open Source Implementation

Distributed Optimal Power Flow for VSC-MTDC Meshed AC/DC Grids Using ALADIN

Rapid Scalable Distributed Power Flow with Open-Source Implementation


Axion field evolution around QCD

Early seeds of axion miniclusters

Journal of Cosmology and Astroparticle Physics

Simulations of axionlike particles in the postinflationary scenario

Structure of axion miniclusters

Axion minivoids and implications for direct detection

Spectrum of global string networks and the axion dark matter mass

Miniclusters from axion string simulations

Cosmology of axion dark matter


Imputation of parental genotypes, inference of sibling IBD segments, family based GWAS, and polygenic score analyses.

Polygenic prediction of educational attainment within and between families from genome-wide association analyses in 3 million individuals

Mendelian imputation of parental genotypes for genome-wide estimation of direct and indirect genetic effects

Studying the genetics of participation using footprints left on the ascertained genotypes

Novel estimators for family-based genome-wide association studies increase power and robustness


The monorepo that powers the GreenDB.

GreenDB: Toward a Product-by-Product Sustainability Database

GreenDB: A Product-by-Product Sustainability Database

Zenodo (CERN European Organization for Nuclear Research)

GreenDB -- A Dataset and Benchmark for Extraction of Sustainability Information of Consumer Goods


Standardized and Automated MetaBarcoding Analyses workflow (Mirror)

Comparative Analysis of Fecal Microbiomes From Wild Waterbirds to Poultry, Cattle, Pigs, and Wastewater Treatment Plants for a Microbial Source Tracking Approach

Sharing Vitamin B12 between Bacteria and Microalgae Does Not Systematically Occur: Case Study of the Haptophyte Tisochrysis lutea

Quorum Sensing Regulates the Hydrolytic Enzyme Production and Community Composition of Heterotrophic Bacteria in Coastal Waters


A software system that allows to easily design and deploy diverse types of crowdsourcing tasks.

Can The Crowd Identify Misinformation Objectively?

The many dimensions of truthfulness: Crowdsourcing misinformation assessments on a multidimensional scale

The COVID-19 Infodemic: Can the Crowd Judge Recent Misinformation Objectively?

Can the crowd judge truthfulness? A longitudinal study on recent misinformation about COVID-19

Crowd_Frame


See main repository

Including massive neutrinos in thermal Sunyaev Zeldovich power spectrum and cluster counts analyses

Component-separated, CIB-cleaned thermal Sunyaev–Zel'dovich maps from Planck PR4 data with a flexible public needlet ILC pipeline

Cross-correlation of the thermal Sunyaev--Zel'dovich and CMB lensing signals in Planck PR4 data with robust CIB decontamination

Improved modeling of the kinematic Sunyaev-Zel’dovich projected-fields signal and its cosmological dependence


Exploiting Symmetry Reduces the Cost of Training QAOA

IEEE Transactions on Quantum Engineering

Constructing Optimal Contraction Trees for Tensor Network Quantum Circuit Simulation

Importance of Diagonal Gates in Tensor Network Simulations

Similarity-based parameter transferability in the quantum approximate optimization algorithm

Graph representation learning for parameter transferability in quantum approximate optimization algorithm

Stochastic Approach For Simulating Quantum Noise Using Tensor Networks

QArchSearch: A Scalable Quantum Architecture Search Package


[AAAI 2022] TempoQR: Temporal Question Reasoning over Knowledge Graphs

Question Answering Over Temporal Knowledge Graphs

ForecastTKGQuestions: A Benchmark for Temporal Question Answering and Forecasting over Temporal Knowledge Graphs


PyTorch implementation of "Lip to Speech Synthesis in the Wild with Multi-task Learning" (ICASSP2023)

SVTS: Scalable Video-to-Speech Synthesis

Lip-to-Speech Synthesis in the Wild with Multi-task Learning


A library for adversarial classifier evasion

Explanation-Guided Backdoor Poisoning Attacks Against Malware Classifiers

Evading Classifiers by Morphing in the Dark

Data driven exploratory attacks on black box classifiers in adversarial domains

A Survey on Adversarial Attacks for Malware Analysis

Adversarial Regression with Multiple Learners

Good-looking but Lacking Faithfulness: Understanding Local Explanation Methods through Trend-based Testing

Proceedings of the 2023 ACM SIGSAC Conference on Computer and Communications Security


torchange - A Unified Change Representation Learning Benchmark Library

Change is Everywhere: Single-Temporal Supervised Object Change Detection in Remote Sensing Imagery

Scalable Multi-Temporal Remote Sensing Change Data Generation via Simulating Stochastic Change Process

Segment Any Change

Changen2: Multi-Temporal Remote Sensing Generative Change Foundation
  Model

Single-Temporal Supervised Learning for Universal Remote Sensing Change Detection

International Journal of Computer Vision


Collecting Resources in Sub-Saharan African Languages for Automatic Speech Recognition: a Case Study of Wolof

Advanced Convolutional Neural Network-Based Hybrid Acoustic Models for Low-Resource Speech Recognition

The first large scale collection of diverse Hausa language datasets

PronouncUR: An Urdu Pronunciation Lexicon Generator

Machine Assisted Analysis of Vowel Length Contrasts in Wolof


Basic, no assumptions, multi-pileup

Synthetic microbe communities provide internal reference standards for metagenome sequencing and analysis

piRNAs Are Associated with Diverse Transgenerational Effects on Gene and Transposon Expression in a Hybrid Dysgenic Syndrome of D. virilis

Whole genome sequencing in Drosophila virilis identifies Polyphemus, a recently activated Tc1-like transposon with a possible role in hybrid dysgenesis


MACER: MAximizing CErtified Radius (ICLR 2020)

MACER: Attack-free and Scalable Robust Training via Maximizing Certified Radius

Consistency Regularization for Certified Robustness of Smoothed Classifiers

SmoothMix: Training Confidence-calibrated Smoothed Classifiers for Certified Robustness

Data-Dependent Randomized Smoothing

Accelerating Certified Robustness Training via Knowledge Transfer


This repo provides scripts for converting tensorflow and pytorch models to coreml for variety of tasks. Converted models like efficientDet, mobilenetV3, efficientNet in coreml format is also provided

MobileNetV2: Inverted Residuals and Linear Bottlenecks

EfficientNet: Rethinking Model Scaling for Convolutional Neural Networks

Inception-v4, Inception-ResNet and the Impact of Residual Connections on Learning

Searching for MobileNetV3

EfficientDet: Scalable and Efficient Object Detection

MobileDets: Searching for Object Detection Architectures for Mobile Accelerators


Common repo for our ongoing research on motion forecasting for self-driving

Wayformer: Motion Forecasting via Simple & Efficient Attention Networks

Motion Transformer with Global Intention Localization and Local Movement Refinement

MPA: MultiPath++ Based Architecture for Motion Prediction

RedMotion: Motion Prediction via Redundancy Reduction

Words in Motion: Representation Engineering for Motion Forecasting


Training A Small Emotional Vision Language Model for Visual Art Comprehension

ArtEmis: Affective Language for Visual Art

It is Okay to Not Be Okay: Overcoming Emotional Bias in Affective Image Captioning by Contrastive Data Collection


a Customized Proteogenomic Workflow for Neoantigen Prediction and Selection

Main Strategies for the Identification of Neoantigens

Computational cancer neoantigen prediction: current status and recent advances

ProGeo-neo: a customized proteogenomic workflow for neoantigen prediction and selection

Deciphering Human Leukocyte Antigen Susceptibility Maps From Immunopeptidomics Characterization in Oncology and Infections

Frontiers in cellular and infection microbiology


Change detection of remote sensing images

STNet: Spatial and Temporal feature fusion network for change detection in remote sensing images


a tool to segment the hypothalamus and associated subunits on T1-weighted MRI scans

Automated segmentation of the hypothalamus and associated subunits in brain MRI

A Learning Strategy for Contrast-agnostic MRI Segmentation

A deep learning toolbox for automatic segmentation of subcortical limbic structures from MRI images

Unsupervised Data Imputation via Variational Inference of Deep Subspaces


Pytorch world language model (text generation) for PTB dataset example

Recurrent Neural Network Regularization

Using the Output Embedding to Improve Language Models

Tying Word Vectors and Word Classifiers: A Loss Framework for Language Modeling

Genie: A Generator of Natural Language Semantic Parsers for Virtual Assistant Commands

Programming Language Design and Implementation

Efficient Estimation of Influence of a Training Instance


A CIFAR10-like galaxy image dataset

Scaling Laws for Galaxy Images


[NeurIPS 2020 Spotlight] State-adversarial PPO for robust deep reinforcement learning

Efficient Neural Network Robustness Certification with General Activation Functions

Robust Deep Reinforcement Learning against Adversarial Perturbations on State Observations

Robust Reinforcement Learning on State Observations with Learned Optimal Adversary

Real-time Adversarial Perturbations against Deep Reinforcement Learning Policies: Attacks and Defenses


[TACL 2021] Code and data for the framework in "Multimodal Pretraining Unmasked: A Meta-Analysis and a Unified Framework of Vision-and-Language BERTs"

Visually Grounded Reasoning across Languages and Cultures

Vision-and-Language or Vision-for-Language? On Cross-Modal Influence in Multimodal Transformers

IGLUE: A Benchmark for Transfer Learning across Modalities, Tasks, and Languages

Effect of Visual Extensions on Natural Language Understanding in Vision-and-Language Models

The BLA Benchmark: Investigating Basic Language Abilities of Pre-Trained Multimodal Models

Contrastive Learning with Expectation-Maximization for Weakly Supervised Phrase Grounding

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

Switch-BERT: Learning to Model Multimodal Interactions by Switching Attention and Input

Meta-learning For Vision-and-language Cross-lingual Transfer


Differentiable Sorting Networks

Differentiable Sorting Networks for Scalable Sorting and Ranking Supervision

Monotonic Differentiable Sorting Networks

Learning with Differentiable Algorithms


Using ggtree to build phylogenetic trees

ggtree: an R package for visualization and annotation of phylogenetic trees with their covariates and other associated data

Using ggtree to Visualize Data on Tree‐Like Structures

Two Methods for Mapping and Visualizing Associated Data on Phylogeny Using Ggtree.


UniSA: Unified Generative Framework for Sentiment Analysis

Exploring the Limits of Transfer Learning with a Unified Text-to-Text Transformer

BART: Denoising Sequence-to-Sequence Pre-training for Natural Language Generation, Translation, and Comprehension


Library to simplify autograd computations in PyTorch

Deep Unlearning via Randomized Conditionally Independent Hessians

Efficient Per-Example Gradient Computations

Data-IQ: Characterizing subgroups with heterogeneous outcomes in tabular data

TRIAGE: Characterizing and auditing training data for improved regression


Code for "Counterfactual Fairness" (NIPS2017)

Counterfactual Fairness

I Prefer not to Say: Protecting User Consent in Models with Optional Personal Data

Counterfactual Fairness for Predictions using Generative Adversarial Networks


Tk-Instruct is a Transformer model that is tuned to solve many NLP tasks by following instructions.

Super-NaturalInstructions: Generalization via Declarative Instructions on 1600+ NLP Tasks

Learning to Compress Prompts with Gist Tokens

Did You Read the Instructions? Rethinking the Effectiveness of Task Definitions in Instruction Learning

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

Improving Cross-Task Generalization with Step-by-Step Instructions

Zero-Shot Generalization during Instruction Tuning: Insights from
  Similarity and Granularity

Toward Zero-Shot Instruction Following

Donkii: Can Annotation Error Detection Methods Find Errors in Instruction-Tuning Datasets?


Image Super-Resolution as a Defense Against Adversarial Attacks

IEEE transactions on image processing : a publication of the IEEE Signal Processing Society

Self-Recoverable Adversarial Examples: A New Effective Protection Mechanism in Social Networks

Delving into Deep Image Prior for Adversarial Defense: A Novel Reconstruction-based Defense Framework


Transformer for Partial Differential Equations' Operator Learning

Scalable Transformer for PDE Surrogate Modeling

Inducing Point Operator Transformer: A Flexible and Scalable Architecture for Solving PDEs

HAMLET: Graph Transformer Neural Operator for Partial Differential
  Equations


BLEU might be Guilty but References are not Innocent

Human-Paraphrased References Improve Neural Machine Translation

On Systematic Style Differences between Unsupervised and Supervised MT and an Application for High-Resource Machine Translation


Full-Glow: Fully conditional Glow for more realistic image generation

Structured Output Learning with Conditional Generative Flows

Generative Flows with Invertible Attentions


tensor-tensor product toolbox

Dictionary Learning With Low-Rank Coding Coefficients for Tensor Completion

Tensor Arnoldi–Tikhonov and GMRES-Type Methods for Ill-Posed Problems with a t-Product Structure

Tensor-Tensor Product Toolbox

An Efficient Randomized Fixed-Precision Algorithm for Tensor Singular Value Decomposition

Randomized regularized extended Kaczmarz algorithms for tensor recovery

CS decomposition and GSVD for tensors based on the T-product

A Randomized Singular Value Decomposition for Third-Order Oriented Tensors

A Randomized Algorithm for Tensor Singular Value Decomposition Using an Arbitrary Number of Passes

Adaptive Cross Tubal Tensor Approximation

The Fréchet derivative of the tensor t-function


This repository contains code for spatio-temporal deep learning on functional MRI data

Spatial Temporal Graph Convolutional Networks for Skeleton-Based Action Recognition

Disentangling and Unifying Graph Convolutions for Skeleton-Based Action Recognition

Spatio-Temporal Graph Convolution for Resting-State fMRI Analysis

Learning Dynamic Graph Representation of Brain Connectome with Spatio-Temporal Attention

Improving Phenotype Prediction using Long-Range Spatio-Temporal Dynamics of Functional Connectivity


Deconvoluting Spatial Transcriptomics Data through Graph-based Artificial Intelligence

DSTG: deconvoluting spatial transcriptomics data through graph-based artificial intelligence

Clinical and translational values of spatial transcriptomics

Signal transduction and targeted therapy

Spatial omics: Navigating to the golden era of cancer research

Analysis and Visualization of Spatial Transcriptomic Data

Deep Learning in Single-Cell Analysis


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

Saving Dense Retriever from Shortcut Dependency in Conversational Search

Generating Information-Seeking Conversations from Unlabeled Documents

Weakly-Supervised Open-Retrieval Conversational Question Answering

Role of Attentive History Selection in Conversational Information Seeking


JAX + Flax implementation of "Combinatorial Optimization with Physics-Inspired Graph Neural Networks" by Schuetz et al.

Combinatorial optimization with physics-inspired graph neural networks

Modern graph neural networks do worse than classical greedy algorithms in solving combinatorial optimization problems like maximum independent set

Inability of a graph neural network heuristic to outperform greedy algorithms in solving combinatorial optimization problems


The Washington Post's analysis of NOAA climate change data for the contiguous United States


Question Answering and Generation for Summarization

BART: Denoising Sequence-to-Sequence Pre-training for Natural Language Generation, Translation, and Comprehension

NewsQA: A Machine Comprehension Dataset

Bottom-Up Abstractive Summarization

Asking and Answering Questions to Evaluate the Factual Consistency of Summaries

Factual Consistency Evaluation for Text Summarization via Counterfactual Estimation

HaRiM^+: Evaluating Summary Quality with Hallucination Risk


The official repository of the Eesen project

EESEN: End-to-End Speech Recognition using Deep RNN Models and WFST-based Decoding

First-Pass Large Vocabulary Continuous Speech Recognition using Bi-Directional Recurrent DNNs

Improving LSTM-CTC based ASR performance in domains with limited training data


Source code of the neural Hawkes particle smoothing (ICML 2019)

Imputing Missing Events in Continuous-Time Event Streams

HYPRO: A Hybridly Normalized Probabilistic Model for Long-Horizon Prediction of Event Sequences

Modeling Continuous Time Sequences with Intermittent Observations using Marked Temporal Point Processes

ACM Transactions on Intelligent Systems and Technology


This repository contains JSON decision models for analyzed disability-claim decisions issued by the Board of Veterans' Appeals of the U.S. Department of Veterans Affairs.

Sentence Embeddings and High-Speed Similarity Search for Fast Computer Assisted Annotation of Legal Documents

The unreasonable effectiveness of large language models in zero-shot semantic annotation of legal texts

Cross-Domain Generalization and Knowledge Transfer in Transformers Trained on Legal Data

Data-Centric Machine Learning: Improving Model Performance and Understanding Through Dataset Analysis

Extractive Summarization of Legal Decisions using Multi-task Learning and Maximal Marginal Relevance

Data-Centric Machine Learning in the Legal Domain


UAV Path Planning for Wireless Data Harvesting: A Deep Reinforcement Learning Approach

UAV Path Planning using Global and Local Map Information with Deep Reinforcement Learning

Learning to Recharge: UAV Coverage Path Planning through Deep Reinforcement Learning


Official repository for "A Self-supervised Approach for Adversarial Robustness" (CVPR 2020--Oral)

Local Gradients Smoothing: Defense against localized adversarial attacks

Boosting the Transferability of Adversarial Attacks with Reverse Adversarial Perturbation

FaceGuard: A Self-Supervised Defense Against Adversarial Face Images

Delving into Deep Image Prior for Adversarial Defense: A Novel Reconstruction-based Defense Framework


Inductive relation prediction by subgraph reasoning, ICML'20

Inductive Relation Prediction by Subgraph Reasoning

SumGNN: multi-typed drug interaction prediction via efficient knowledge graph summarization

Inductive Relation Prediction by BERT

Knowledge Graph Reasoning with Relational Directed Graph

Multi-Aspect Explainable Inductive Relation Prediction by Sentence Transformer

Accurate and interpretable drug-drug interaction prediction enabled by knowledge subgraph learning


QPLEX: Duplex Dueling Multi-Agent Q-Learning

Rethinking the Implementation Tricks and Monotonicity Constraint in Cooperative Multi-Agent Reinforcement Learning

Tesseract: Tensorised Actors for Multi-Agent Reinforcement Learning

Regularized Softmax Deep Multi-Agent Q-Learning

LINDA: multi-agent local information decomposition for awareness of teammates

Rethinking Individual Global Max in Cooperative Multi-Agent Reinforcement Learning

Efficient Multi-agent Reinforcement Learning by Planning

RiskQ: Risk-sensitive Multi-Agent Reinforcement Learning Value Factorization

On Stateful Value Factorization in Multi-Agent Reinforcement Learning


List of software packages for multi-trait / multiple-trait / multivariate / high-dimensional GWAS

Bayesian Test for Colocalisation between Pairs of Genetic Association Studies Using Summary Statistics

Polygenic Modeling with Bayesian Sparse Linear Mixed Models

MultiPhen: Joint Model of Multiple Phenotypes Can Increase Discovery in GWAS

A Unified Framework for Association Analysis with Multiple Related Phenotypes

A Multi-Trait, Meta-analysis for Detecting Pleiotropic Polymorphisms for Stature, Fatness and Reproduction in Beef Cattle

TATES: Efficient Multivariate Genotype-Phenotype Analysis for Genome-Wide Association Studies

GPA: A Statistical Approach to Prioritizing GWAS Results by Integrating Pleiotropy and Annotation

A Comparison of Multivariate Genome-Wide Association Methods

Novel Loci for Metabolic Networks and Multi-Tissue Expression Studies Reveal Genes for Atherosclerosis

Analyze multivariate phenotypes in genetic association studies by combining univariate association tests


PyTorch implementation of "Bootstrap Your Own Latent: A New Approach to Self-Supervised Learning" with DDP and Apex AMP

Bootstrap your own latent: A new approach to self-supervised Learning

SSLGuard: A Watermarking Scheme for Self-supervised Learning Pre-trained Encoders

Self-Supervised Pretraining for 2D Medical Image Segmentation

Self-Supervised Learning for Invariant Representations From Multi-Spectral and SAR Images

Do We Really Need to Learn Representations from In-domain Data for Outlier Detection?

Exploiting Diversity of Unlabeled Data for Label-Efficient Semi-Supervised Active Learning

Can Pre-trained Networks Detect Familiar Out-of-Distribution Data?

Toward Label-Efficient Neural Network Training: Diversity-Based Sampling in Semi-Supervised Active Learning


[ICLR 2021] How to Find Your Friendly Neighborhood: Graph Attention Design with Self-Supervision

Graph Self-Supervised Learning: A Survey

A Comprehensive Survey on Pretrained Foundation Models: A History from BERT to ChatGPT

Sparse Graph Attention Networks

Label-Wise Graph Convolutional Network for Heterophilic Graphs

Simple Truncated SVD based Model for Node Classification on Heterophilic Graphs

A Piece-wise Polynomial Filtering Approach for Graph Neural Networks

Self-Guided Robust Graph Structure Refinement

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


A small program that glues together other programs allowing a user to input a codon alignment in FASTA format and produce an annotated phylogenetic tree showing which substitutions occurred on a given branch. Originally written for colleagues at the MRC NIMR.

Divergent evolutionary trajectories of influenza B viruses underlie their contemporaneous epidemic activity

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

Detection and Phylogenetic Analysis of Porcine Deltacoronavirus in Korean Swine Farms, 2015

Somatic evolution and global expansion of an ancient transmissible cancer lineage

Respiratory syncytial, parainfluenza and influenza virus infection in young children with acute lower respiratory infection in rural Gambia

Antigenic and molecular characterization of low pathogenic avian influenza A(H9N2) viruses in sub-Saharan Africa from 2017 through 2019

Spatiotemporal Associations and Molecular Evolution of Highly Pathogenic Avian Influenza A H7N9 Virus in China from 2017 to 2021

Molecular epidemiology of influenza A(H1N1)PDM09 hemagglutinin gene circulating in São Paulo State , Brazil: 2016 anticipated influenza season

Revista do Instituto de Medicina Tropical de São Paulo

Overview of three influenza seasons in Georgia, 2014–2017

Genetic Characterization of Highly Pathogenic Avian Influenza A(H5N8) Virus in Pakistani Live Bird Markets Reveals Rapid Diversification of Clade 2.3.4.4b Viruses

Diversity in the Circulation of Influenza A(H3N2) Viruses in the Northern Hemisphere in the 2018–19 Season


A minimal yet resourceful implementation of diffusion models (along with pretrained models + synthetic images for nine datasets)

Practical and Asymptotically Exact Conditional Sampling in Diffusion Models

Improving Adversarial Robustness by Contrastive Guided Diffusion Process

An Economic Solution to Copyright Challenges of Generative AI

Understanding Hallucinations in Diffusion Models through Mode
  Interpolation

Fair Sampling in Diffusion Models through Switching Mechanism


Systematic Evaluation of Membership Inference Privacy Risks of Machine Learning Models

Systematic Evaluation of Privacy Risks of Machine Learning Models

RelaxLoss: Defending Membership Inference Attacks without Losing Utility

SHAPr: An Efficient and Versatile Membership Privacy Risk Metric for Machine Learning

Can Membership Inferencing be Refuted?

On the Vulnerability of Data Points under Multiple Membership Inference Attacks and Target Models

A Cautionary Tale: On the Role of Reference Data in Empirical Privacy Defenses