Artefact for "CoCoNuT: Combining Context-Aware Neural Translation Models using Ensemble for Program Repair."

CoCoNuT: combining context-aware neural translation models using ensemble for program repair

International Symposium on Software Testing and Analysis

A Survey of Learning-based Automated Program Repair

CIRCLE: Continual Repair across Programming Languages

A Survey on Automated Program Repair Techniques

The Inversive Relationship Between Bugs and Patches: An Empirical Study


Computational pipeline for calling consensi on R2C2 nanopore data

Systematic assessment of long-read RNA-seq methods for transcript identification and quantification

bioRxiv : the preprint server for biology

Depletion of Hemoglobin Transcripts and Long-Read Sequencing Improves the Transcriptome Annotation of the Polar Bear (Ursus maritimus)

Generation of an isoform-level transcriptome atlas of macrophage activation

Isoform-level transcriptome Atlas of Macrophage Activation

Illumina But With Nanopore: Sequencing Illumina libraries at high accuracy on the ONT MinION using R2C2


DiffWave is a fast, high-quality neural vocoder and waveform synthesizer.

Denoising Diffusion Probabilistic Models

DiffWave: A Versatile Diffusion Model for Audio Synthesis

A Survey on Neural Speech Synthesis

PriorGrad: Improving Conditional Denoising Diffusion Models with Data-Dependent Adaptive Prior

Music ControlNet: Multiple Time-Varying Controls for Music Generation

PriorGrad: Improving Conditional Denoising Diffusion Models with Data-Driven Adaptive Prior

An Efficient Membership Inference Attack for the Diffusion Model by Proximal Initialization

Restoring degraded speech via a modified diffusion model

Mel Spectrogram Inversion with Stable Pitch

Score-based Source Separation with Applications to Digital Communication Signals


Improving Convolutional Networks via Attention Transfer (ICLR 2017)

Paying More Attention to Attention: Improving the Performance of Convolutional Neural Networks via Attention Transfer

ICLR (Poster) - Paying more attention to attention: improving the performance of convolutional neural networks via attention transfer

International Conference on Learning Representations

Vision Transformer With Attentive Pooling for Robust Facial Expression Recognition

IEEE Transactions on Affective Computing

torchdistill: A Modular, Configuration-Driven Framework for Knowledge Distillation

Reproducible Research in Pattern Recognition

A Comprehensive Review on Lane Marking Detection Using Deep Neural Networks

Data Selection for Efficient Model Update in Federated Learning


Multilingual Large Language Models Evaluation Benchmark

Measuring Massive Multitask Language Understanding

Okapi: Instruction-tuned Large Language Models in Multiple Languages with Reinforcement Learning from Human Feedback

Quantifying Multilingual Performance of Large Language Models Across
  Languages

Aurora-M: The First Open Source Multilingual Language Model Red-teamed
  according to the U.S. Executive Order


Smart EVSE Electric Vehicle Charging Station

On M2M Micropayments : A Case Study of Electric Autonomous Vehicles

An architecture for distributed ledger-based M2M auditing for Electric Autonomous Vehicles


A land use land cover disaggregation and change detection model


A practical guideline of genomics-driven drug discovery in the era of global biobank meta-analysis

Genome-wide meta-analysis of iron status biomarkers and the effect of iron on all-cause mortality in HUNT

Genome-wide association study of thyroid-stimulating hormone highlights new genes, pathways and associations with thyroid disease


Mpox 2022 repository

Travel-Related Monkeypox Outbreaks in the Era of COVID-19 Pandemic: Are We Prepared?

Monkeypox: A clinical update for paediatricians

Atypical and Unique Transmission of Monkeypox Virus during the 2022 Outbreak: An Overview of the Current State of Knowledge

Heavy-tailed sexual contact networks and the epidemiology of monkeypox outbreak in non-endemic regions, May 2022

Voluntary vaccination may not stop monkeypox outbreak: A game-theoretic model

Projecting the impact of testing and vaccination on the transmission dynamics of the 2022 monkeypox outbreak in the USA

Monkeypox outbreaks in the context of the COVID-19 pandemic: Network and clustering analyses of global risks and modified SEIR prediction of epidemic trends

Monkeypox in Latin America and the Caribbean: assessment of the first 100 days of the 2022 outbreak


Combine images made with different resolutions, including the "feathering" technique for interferometry data.

Distributed Star Formation throughout the Galactic Center Cloud Sgr B2

Erratum: Kinematics of the Atomic ISM in M33 on 80 pc scales

Monthly notices of the Royal Astronomical Society

The MUSTANG Galactic Plane Survey (MGPS90) Pilot

The Astrophysical Journal Supplement Series

A lack of constraints on the cold opaque HI mass: HI spectra in M31 and
  M33 prefer multi-component models over a single cold opaque component

Monthly Notices of the Royal Astronomical Society

Relationship between the line width of the atomic and molecular ISM in M33

FEASTS: IGM Cooling Triggered by Tidal Interactions through the Diffuse H i Phase around NGC 4631

ALMA-IMF. VIII. Combination of Interferometric Continuum Images with Single-dish Surveys and Structural Analysis of Six Protoclusters

Synthetic Next Generation Very Large Array line observations of a massive star-forming cloud

FEASTS Combined with Interferometry (I): Overall Properties of Diffuse
  HI and Implications for Gas Accretion in Nearby Galaxies

Filaments in the OMC-3 cloud and uncertainties in estimates of filament profiles


OpenCCG library for parsing and realization with CCG

Generating comments from source code with CCGs

Proceedings of the 4th ACM SIGSOFT International Workshop on NLP for Software Engineering

Most NLG is Low-Resource: here’s what we can do about it

Proceedings of the 2nd Workshop on Natural Language Generation, Evaluation, and Metrics (GEM)

Toward Bayesian Synchronous Tree Substitution Grammars for Sentence Planning

International Conference on Natural Language Generation


Benchmarks for generative chemistry

GuacaMol: Benchmarking Models for De Novo Molecular Design

Journal of chemical information and modeling

Improving black-box optimization in VAE latent space using decoder uncertainty

De novo generation of multi-target compounds using deep generative chemistry

Automated patent extraction powers generative modeling in focused chemical spaces


A package to quickly visualise risk-of-bias assessment results

Risk‐of‐bias VISualization (robvis): An R package and Shiny web app for visualizing risk‐of‐bias assessments

Strain-specific and outcome-specific efficacy of probiotics for the treatment of irritable bowel syndrome: A systematic review and meta-analysis

The Effects of Upper-Body Exoskeletons on Human Metabolic Cost and Thermal Response during Work Tasks—A Systematic Review

International journal of environmental research and public health

Use of Apps to Promote Childhood Vaccination: Systematic Review

The Effect of Telehealth on Hospital Services Use: Systematic Review and Meta-analysis

Therapeutic efficacy of umbilical cord-derived stem cells for diabetes mellitus: a meta-analysis study

Oral magnesium supplementation for insomnia in older adults: a Systematic Review & Meta-Analysis

Immersive Virtual Reality as Analgesia during Dressing Changes of Hospitalized Children and Adolescents with Burns: A Systematic Review with Meta-Analysis

Factors Influencing the Efficacy of COVID-19 Vaccines: A Quantitative Synthesis of Phase III Trials

The Role of Spinal Orthoses in Osteoporotic Vertebral Fractures of the Elderly Population (Age 60 Years or Older): Systematic Review


Train a deep learning net with OpenStreetMap features and satellite imagery.

Using convolutional networks and satellite imagery to identify patterns in urban environments at a large scale

Infrastructure Quality Assessment in Africa using Satellite Imagery and Deep Learning

Semantic Labeling of Large-Area Geographic Regions Using Multiview and Multidate Satellite Images and Noisy OSM Training Labels

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


Top level "umbrella" package for RAIL

Detection, instance segmentation, and classification for astronomical surveys with deep learning (deepdisc): detectron2 implementation and demonstration with Hyper Suprime-Cam data

The Sensitivity of GPz Estimates of Photo-z Posterior PDFs to Realistically Complex Training Set Imperfections

Publications of the Astronomical Society of the Pacific

The catalog-to-cosmology framework for weak lensing and galaxy clustering for LSST

Improved Tomographic Binning of 3 × 2 pt Lens Samples: Neural Network Classifiers and Optimal Bin Assignments

Improving Photometric Redshift Estimates with Training Sample Augmentation

From Data to Software to Science with the Rubin Observatory LSST


Wavelet Adaptive Block-Based solver for Interactions with Turbulence

A Wavelet-Adaptive Method for Multiscale Simulation of Turbulent Flows in Flying Insects

An Open and Parallel Multiresolution Framework Using Block-Based Adaptive Grids

Notes on numerical fluid mechanics and multidisciplinary design

A 3D wavelet-based incompressible Navier-Stokes solver for fully adaptive computations in time-varying geometries


EGG: Emergence of lanGuage in Games

Compositionality and Generalization in Emergent Languages

Anti-efficient encoding in emergent communication

EGG: a toolkit for research on Emergence of lanGuage in Games

Entropy Minimization In Emergent Languages

Interpretable agent communication from scratch (with a generic visual processor emerging on the side)

Emergent Language Generalization and Acquisition Speed are not tied to Compositionality

Cross-Domain Image Captioning with Discriminative Finetuning

On the Relationship between Zipf’s Law of Abbreviation and Interfering Noise in Emergent Languages

International Joint Conference on Natural Language Processing

Referential communication in heterogeneous communities of pre-trained visual deep networks


A Neural Net Training Interface on TensorFlow, with focus on speed + flexibility

Deep Residual Learning for Image Recognition

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

Mask R-CNN

Squeeze-and-Excitation Networks

Feature Pyramid Networks for Object Detection

Image-to-Image Translation with Conditional Adversarial Networks

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

Unsupervised Representation Learning with Deep Convolutional Generative Adversarial Networks

Playing Atari with Deep Reinforcement Learning

Aggregated Residual Transformations for Deep Neural Networks


A library for transfer learning by reusing parts of TensorFlow models.

Data and Representation for Turkish Natural Language Inference

Deep learning-based, computer-aided classifier developed with dermoscopic images shows comparable performance to 164 dermatologists in cutaneous disease diagnosis in the Chinese population

Towards ML Engineering: A Brief History Of TensorFlow Extended (TFX)

Learning Representations for Axis-Aligned Decision Forests through Input Perturbation

Automated Detection of Cervical Carotid Artery Calcifications in Cone Beam Computed Tomographic Images Using Deep Convolutional Neural Networks

Use of Machine Translation to Obtain Labeled Datasets for Resource-Constrained Languages.


Reinforcement learning for medical decisions

A Conservative Q-Learning approach for handling distribution shift in sepsis treatment strategies

Trajectory Inspection: A Method for Iterative Clinician-Driven Design of Reinforcement Learning Studies


Tools for extracting read counts and gc and mappability statistics in preparation for running HMMCopy.

Analysis pipelines for cancer genome sequencing in mice

MAVS Antagonizes Human Stem Cell Senescence as a Mitochondrial Stabilizer

Single-nucleus RNA sequencing of pre-malignant liver reveals disease-associated hepatocyte state with HCC prognostic potential

CRISPR-based screening identifies XPO7 as a positive regulator of senescence


RISC-V CPU Core (RV32IM)

Don't CWEAT It

Proceedings of the 41st IEEE/ACM International Conference on Computer-Aided Design


Tracking human population structure through time from whole genome sequences

Insights into Mus musculus Population Structure across Eurasia Revealed by Whole-Genome Analysis

Transcontinental dispersal of Anopheles gambiae occurred from West African origin via serial founder events

The origin of island populations of the African malaria mosquito, Anopheles coluzzii

Whole-genome sequencing analysis of wild house mice (Mus musculus) captured in Madagascar.


dN/dS methods to quantify selection in cancer and somatic evolution

Analyses of non-coding somatic drivers in 2,658 cancer whole genomes

Timing the Landmark Events in the Evolution of Clear Cell Renal Cell Cancer: TRACERx Renal

Longitudinal molecular trajectories of diffuse glioma in adults

Clonal dynamics of haematopoiesis across the human lifespan

Multi-cancer analysis of clonality and the timing of systemic spread in paired primary tumors and metastases

The somatic mutation landscape of the human body

Negative selection in tumor genome evolution acts on essential cellular functions and the immunopeptidome

Cross-species oncogenic signatures of breast cancer in canine mammary tumors

Whole genome sequencing of skull-base chordoma reveals genomic alterations associated with recurrence and chordoma-specific survival

Genomic evidence supports a clonal diaspora model for metastases of esophageal adenocarcinoma


Codes for our paper "Progressive Differentiable Architecture Search:Bridging the Depth Gap between Search and Evaluation"

Progressive Differentiable Architecture Search: Bridging the Depth Gap Between Search and Evaluation

PC-DARTS: Partial Channel Connections for Memory-Efficient Architecture Search

NAS evaluation is frustratingly hard

Progressive DARTS: Bridging the Optimization Gap for NAS in the Wild

RAPDARTS: Resource-Aware Progressive Differentiable Architecture Search


Weakly Supervised Learning for Findings Detection in Medical Images

Grad-CAM: Visual Explanations from Deep Networks via Gradient-Based Localization

International Journal of Computer Vision

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

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

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

Learning to diagnose from scratch by exploiting dependencies among labels


Disentanglement library for PyTorch

Variational Learning with Disentanglement-PyTorch

When are Post-hoc Conceptual Explanations Identifiable?

On the relationship between disentanglement and multi-task learning


TLDR: Extreme Summarization of Scientific Documents

The Semantic Scholar Open Data Platform

Twist Decoding: Diverse Generators Guide Each Other

Scientific document processing: challenges for modern learning methods

International journal on digital libraries


Module for measuring feature dependence for black-box models

Aequitas: A Bias and Fairness Audit Toolkit

Algorithmic fairness in computational medicine

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

FairAIED: Navigating Fairness, Bias, and Ethics in Educational AI Applications


[ACL'19] [PyTorch] Multimodal Transformer

Multimodal Transformer for Unaligned Multimodal Language Sequences

CMU-MOSEAS: A Multimodal Language Dataset for Spanish, Portuguese, German and French

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

Analyzing Modality Robustness in Multimodal Sentiment Analysis

DialogueTRM: Exploring the Intra- and Inter-Modal Emotional Behaviors in the Conversation

COLD Fusion: Calibrated and Ordinal Latent Distribution Fusion for Uncertainty-Aware Multimodal Emotion Recognition

Improving Medical Predictions by Irregular Multimodal Electronic Health Records Modeling

Continuous-Time Audiovisual Fusion with Recurrence vs. Attention for In-The-Wild Affect Recognition

StreaMulT: Streaming Multimodal Transformer for Heterogeneous and Arbitrary Long Sequential Data


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

ArcFace: Additive Angular Margin Loss for Deep Face Recognition

IEEE Transactions on Pattern Analysis and Machine Intelligence

SphereFace: Deep Hypersphere Embedding for Face Recognition

CosFace: Large Margin Cosine Loss for Deep Face Recognition

Additive Margin Softmax for Face Verification


TEACh is a dataset of human-human interactive dialogues to complete tasks in a simulated household environment.

TEACh: Task-driven Embodied Agents that Chat

Don't Copy the Teacher: Data and Model Challenges in Embodied Dialogue

Learning by Asking for Embodied Visual Navigation and Task Completion


Code for the paper "Large-Scale Study of Curiosity-Driven Learning"

See, Hear, Explore: Curiosity via Audio-Visual Association

Touch-based Curiosity for Sparse-Reward Tasks


An implementation of Concrete Autoencoders

Concrete Autoencoders for Differentiable Feature Selection and Reconstruction

Differentiable Unsupervised Feature Selection based on a Gated Laplacian

Deep Unsupervised Feature Selection by Discarding Nuisance and Correlated Features

Where to Pay Attention in Sparse Training for Feature Selection?

Composite Feature Selection using Deep Ensembles

Copula for Instance-wise Feature Selection and Ranking


BioWordVec & BioSentVec: pre-trained embeddings for biomedical words and sentences

Universal Sentence Encoder

BioSentVec: creating sentence embeddings for biomedical texts

IEEE International Conference on Healthcare Informatics

MedSTS: A Resource for Clinical Semantic Textual Similarity

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

Evaluating shallow and deep learning strategies for the 2018 n2c2 shared task on clinical text classification

Journal of the American Medical Informatics Association : JAMIA

How can natural language processing help model informed drug development?: a review

Learning Visual-Semantic Embeddings for Reporting Abnormal Findings on Chest X-rays

Interpretable Multi-Step Reasoning with Knowledge Extraction on Complex Healthcare Question Answering

Can Embeddings Adequately Represent Medical Terminology? New Large-Scale Medical Term Similarity Datasets Have the Answer!

MultiCens: Multilayer network centrality measures to uncover molecular mediators of tissue-tissue communication


Chamfer Distance in Pytorch with f-score

LION: Latent Point Diffusion Models for 3D Shape Generation

Mosaic-SDF for 3D Generative Models

CD^2: Fine-grained 3D Mesh Reconstruction With Twice Chamfer Distance

Basis restricted elastic shape analysis on the space of unregistered surfaces


PSP-UFU (Power Systems Platform of Federal University of Uberlândia) is a cross-platform, multilingual, Free and Open-Source Software with advanced GUI features and CAD tools for electrical power system studies.


Memory Networks implementations

End-To-End Memory Networks

The Goldilocks Principle: Reading Children's Books with Explicit Memory Representations

Adding Gradient Noise Improves Learning for Very Deep Networks

Tracking the World State with Recurrent Entity Networks

A^3: Accelerating Attention Mechanisms in Neural Networks with Approximation

Dialogue Learning With Human-In-The-Loop

Learning through Dialogue Interactions by Asking Questions

GRICE: A Grammar-based Dataset for Recovering Implicature and Conversational rEasoning

Meeting of the Association for Computational Linguistics

Teaching Machines to Converse

Scaffolding Networks for Teaching and Learning to Comprehend.


A collection of python scripts that deal with VASP outpts, e.g. WAVECAR, POTCAR etc.

Charge-Density-Wave-Induced Bands Renormalization and Energy Gaps in a Kagome Superconductor RbV3Sb5

Band Engineering of Dirac Semimetals Using Charge Density Waves

LaO as a candidate substrate for realizing superconductivity in an FeSe epitaxial film

A substitutional quantum defect in WS2 discovered by high-throughput computational screening and fabricated by site-selective STM manipulation

Emergent Spin Phenomena in Air-Stable, Atomically Thin Lead

Fluctuating Ru trimer precursor to a two-stage electronic transition in RuP

Inert Gas Element as Active Infrared‐Absorption Source and Donor in Silicon for Forbidden‐Wavelength Sensing

ADAQ-SYM: Automated Symmetry Analysis of Defect Orbitals


Simulation of detector networks with Fisher-matrix PE

Perspectives for multimessenger astronomy with the next generation of gravitational-wave detectors and high-energy satellites

gwfish: A simulation software to evaluate parameter-estimation capabilities of gravitational-wave detector networks

Classifying binary black holes from Population III stars with the Einstein Telescope: A machine-learning approach


The Senses Toolkit offers a range of modules to learn about and explore climate change scenarios.


PyMatching: A Python/C++ library for decoding quantum error correcting codes with minimum-weight perfect matching.

LEMON - an Open Source C++ Graph Template Library

Electronic Notes in Theoretical Computer Science

PyMatching: A Python Package for Decoding Quantum Codes with Minimum-Weight Perfect Matching

Fusion Blossom: Fast MWPM Decoders for QEC

Real-time decoding for fault-tolerant quantum computing: progress, challenges and outlook

Partially Fault-Tolerant Quantum Computing Architecture with Error-Corrected Clifford Gates and Space-Time Efficient Analog Rotations

High-Photon-Loss Threshold Quantum Computing Using GHZ-State Measurements

Deep Quantum Error Correction

Belief propagation as a partial decoder

Hardware-efficient quantum error correction using concatenated bosonic
  qubits

Resilience of the surface code to error bursts


AgroMo is an Integrated Assessment and Modelling software that integrates 4M a CERES based crop model, the Biome-BGCMuSo biogeochemical and a simple agro-economical model in order to support decision makers at multiple scales.


dandelion - A single cell BCR/TCR V(D)J-seq analysis package for 10X Chromium 5' data

Mapping the developing human immune system across organs

Dandelion uses the single-cell adaptive immune receptor repertoire to explore lymphocyte developmental origins

The cellular immune response to COVID-19 deciphered by single cell multi-omics across three UK centres

Early human lung immune cell development and its role in epithelial cell fate

Dandelionutilizes single cell adaptive immune receptor repertoire to explore lymphocyte developmental origins


TrojanZoo provides a universal pytorch platform to conduct security researches (especially backdoor attacks/defenses) of image classification in deep learning.

BadNets: Identifying Vulnerabilities in the Machine Learning Model Supply Chain

Anti-Backdoor Learning: Training Clean Models on Poisoned Data

Backdoor Defense via Decoupling the Training Process

Model Agnostic Defence against Backdoor Attacks in Machine Learning

A Tale of Evil Twins: Adversarial Inputs versus Poisoned Models

Conference on Computer and Communications Security

AdvMind: Inferring Adversary Intent of Black-Box Attacks

TrojanZoo: Towards Unified, Holistic, and Practical Evaluation of Neural Backdoors

TROJANZOO: Everything you ever wanted to know about neural backdoors (but were afraid to ask).


Python package for hypergraph analysis and visualization.

Hypernetwork Science via High-Order Hypergraph Walks

Hypergraph models of biological networks to identify genes critical to pathogenic viral response

Hypernetwork Science: From Multidimensional Networks to Computational Topology

Topological Simplifications of Hypergraphs

Analyzing, Exploring, and Visualizing Complex Networks via Hypergraphs using SimpleHypergraphs.jl

Hypergraph Artificial Benchmark for Community Detection (h-ABCD)

Properties and Performance of the ABCDe Random Graph Model with Community Structure

EasyGraph: A multifunctional, cross-platform, and effective library for interdisciplinary network analysis

Higher-Order Networks Representation and Learning: A Survey

Gaussian Processes on Hypergraphs


EXONA: The Evolutionary eXploration of Neural Networks Framework -- EXACT, EXALT and EXAMM

Large Scale Evolution of Convolutional Neural Networks Using Volunteer Computing

Investigating Recurrent Neural Network Memory Structures using Neuro-Evolution

The Ant Swarm Neuro-Evolution Procedure for Optimizing Recurrent Networks

Accelerating the Evolution of Convolutional Neural Networks with Node-Level Mutations and Epigenetic Weight Initialization

Online Evolutionary Neural Architecture Search for Multivariate Non-Stationary Time Series Forecasting

Improving Neuroevolution Using Island Extinction and Repopulation

Backpropagation-Free 4D Continuous Ant-Based Neural Topology Search

An Empirical Exploration of Deep Recurrent Connections and Memory Cells Using Neuro-Evolution

An Experimental Study of Weight Initialization and Weight Inheritance Effects on Neuroevolution


Comprehensive Open Source Library for Secure Multiparty Computation

Privacy Preserving Vertical Federated Learning for Tree-based Models

zksk: A Library for Composable Zero-Knowledge Proofs

Workshop on Privacy in the Electronic Society

Anonymized Counting of Nonstationary Wi-Fi Devices When Monitoring Crowds

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

Privacy-friendly statistical counting for pedestrian dynamics


Data, Benchmarks, and methods submitted to the M4 forecasting competition

N-BEATS: Neural basis expansion analysis for interpretable time series forecasting

Recurrent Neural Networks for Time Series Forecasting: Current status and future directions

Time Series Data Augmentation for Deep Learning: A Survey

PROCEEDINGS OF THE THIRTIETH INTERNATIONAL JOINT CONFERENCE ON ARTIFICIAL INTELLIGENCE, IJCAI 2021

Forecasting: theory and practice

Weighted ensemble of statistical models

DEPTS: Deep Expansion Learning for Periodic Time Series Forecasting

Estimating Attention Flow in Online Video Networks

Topological Attention for Time Series Forecasting

Exploring Progress in Multivariate Time Series Forecasting: Comprehensive Benchmarking and Heterogeneity Analysis

Predict, Refine, Synthesize: Self-Guiding Diffusion Models for Probabilistic Time Series Forecasting


a modeling environment tailored to parameter estimation in dynamical systems

COVID-19 outbreak in Wuhan demonstrates the limitations of publicly available case numbers for epidemiological modeling

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

A New Approximation Approach for Transient Differential Equation Models

Extensions of ℓ1 regularization increase detection specificity for cell-type specific parameters in dynamic models

Cell-to-cell variability in JAK2/STAT5 pathway components and cytoplasmic volumes defines survival threshold in erythroid progenitor cells.

Model-based analysis of response and resistance factors of cetuximab treatment in gastric cancer cell lines

Optimal Experimental Design Based on Two-Dimensional Likelihood Profiles

COVID-19 outbreak in Wuhan demonstrates the limitations of publicly available case numbers for epidemiological modelling.


Keras implementation of Representation Learning with Contrastive Predictive Coding

Value Function Spaces: Skill-Centric State Abstractions for Long-Horizon Reasoning

Predictive Coding for Boosting Deep Reinforcement Learning with Sparse Rewards


A 3'-end adapter contaminant trimmer

SOAPnuke: a MapReduce acceleration-supported software for integrated quality control and preprocessing of high-throughput sequencing data

Skewer: a fast and accurate adapter trimmer for next-generation sequencing paired-end reads

AdapterRemoval: easy cleaning of next-generation sequencing reads

The Microbial Genomes Atlas (MiGA) webserver: taxonomic and gene diversity analysis of Archaea and Bacteria at the whole genome level

A Phylogeny of Birds Based on Over 1,500 Loci Collected by Target Enrichment and High-Throughput Sequencing

Target Capture and Massively Parallel Sequencing of Ultraconserved Elements for Comparative Studies at Shallow Evolutionary Time Scales

Sequence Capture versus Restriction Site Associated DNA Sequencing for Shallow Systematics.

Phytochrome diversity in green plants and the origin of canonical plant phytochromes

Genomic inference of the metabolism of cosmopolitan subsurface Archaea, Hadesarchaea

Distinctive expansion of gene families associated with plant cell wall degradation, secondary metabolism, and nutrient uptake in the genomes of grapevine trunk pathogens


predicting expression effects of human genome variants ab initio from sequence

Intelligent Health Care: Applications of Deep Learning in Computational Medicine

GWAS of five gynecologic diseases and cross-trait analysis in Japanese

European journal of human genetics : EJHG

Evaluating the informativeness of deep learning annotations for human complex diseases

Identification and Interpretation of eQTL and eGenes for Hodgkin Lymphoma Susceptibility

Decoding differential gene expression


NiftyMIC is a research-focused toolkit for motion correction and volumetric image reconstruction of 2D ultra-fast MRI.

An automated framework for localization, segmentation and super-resolution reconstruction of fetal brain MRI

NeSVoR: Implicit Neural Representation for Slice-to-Volume Reconstruction in MRI

An Automated Localization, Segmentation and Reconstruction Framework for Fetal Brain MRI

Medical Image Computing and Computer-Assisted Intervention

Retrospective motion correction in foetal MRI for clinical applications: existing methods, applications and integration into clinical practice

AFFIRM: Affinity Fusion-Based Framework for Iteratively Random Motion Correction of Multi-Slice Fetal Brain MRI

Motion correction and volumetric reconstruction for fetal functional magnetic resonance imaging data

Super‐resolution for upper abdominal MRI: Acquisition and post‐processing protocol optimization using brain MRI control data and expert reader validation

Fetal brain MRI atlases and datasets: A review

Reproducibility of Functional Connectivity Estimates in Motion Corrected Fetal fMRI

Smart Ultrasound Imaging and Perinatal, Preterm and Paediatric Image Analysis

Use of super resolution reconstruction MRI for surgical planning in Placenta accreta spectrum disorder: Case series


Neural network toolkit for sentence pair modeling.

Neural Network Models for Paraphrase Identification, Semantic Textual Similarity, Natural Language Inference, and Question Answering

Character-based Neural Networks for Sentence Pair Modeling

Knowledge-Guided Paraphrase Identification

Findings of the Association for Computational Linguistics: EMNLP 2021


A simulator for single-cell expression data  guided by gene regulatory networks

SERGIO: A Single-Cell Expression Simulator Guided by Gene Regulatory Networks

Amortized Inference for Causal Structure Learning

BaCaDI: Bayesian Causal Discovery with Unknown Interventions


Code release for "Conditional Adversarial Domain Adaptation" (NIPS 2018)

Domain Adaptation with Conditional Distribution Matching and Generalized Label Shift

Learning Causal Semantic Representation for Out-of-Distribution Prediction

Tune it the Right Way: Unsupervised Validation of Domain Adaptation via Soft Neighborhood Density

Cross-Domain Cross-Set Few-Shot Learning via Learning Compact and Aligned Representations

Collaborative Training of Balanced Random Forests for Open Set Domain Adaptation

Target Consistency for Domain Adaptation: when Robustness meets Transferability

Co-Teaching for Unsupervised Domain Adaptation and Expansion


Source code for the EMNLP'17 paper "Deep Joint Entity Disambiguation with Local Neural Attention", https://arxiv.org/abs/1704.04920

Improving Entity Linking by Modeling Latent Relations between Mentions

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

Improving Entity Linking by Modeling Latent Entity Type Information

Boosting Entity Linking Performance by Leveraging Unlabeled Documents

Entity-aware ELMo: Learning Contextual Entity Representation for Entity Disambiguation

Linking Named Entities across Languages using Multilingual Word Embeddings

Zenodo (CERN European Organization for Nuclear Research)


Python library for calculting synergy of drug combinations using several drug synergy frameworks

synergy: a Python library for calculating, analyzing and visualizing drug combination synergy

In Vitro/In Vivo Translation of Synergistic Combination of MDM2 and MEK Inhibitors in Melanoma Using PBPK/PD Modelling: Part I

International journal of molecular sciences

Multiplexed single-cell lineage tracing of mitotic kinesin inhibitor resistance in glioblastoma

bioRxiv : the preprint server for biology


Implementation of "Learning Combinatorial Optimization Algorithms over Graphs"

Learning What to Defer for Maximum Independent Sets

Reinforcement learning on graphs: A survey


Benchmarks for Model-Based Optimization

Design-Bench: Benchmarks for Data-Driven Offline Model-Based Optimization

Conservative Objective Models for Effective Offline Model-Based Optimization

RoMA: Robust Model Adaptation for Offline Model-based Optimization

Diffusion Models as Constrained Samplers for Optimization with Unknown
  Constraints


Twitter Tools

Multi-Perspective Relevance Matching with Hierarchical ConvNets for Social Media Search

Knowledge-based Query Expansion in Real-Time Microblog Search

Integrating Lexical and Temporal Signals in Neural Ranking Models for Searching Social Media Streams

Learning to Discover Key Moments in Social Media Streams


Optimal Transport Dataset Distance

Cross-Modal Fine-Tuning: Align then Refine

Dataset Dynamics via Gradient Flows in Probability Space

Cross-Linguistic Syntactic Difference in Multilingual BERT: How Good is It and How Does It Affect Transfer?

Generating Synthetic Datasets by Interpolating along Generalized Geodesics

Speeding Up EfficientNet: Selecting Update Blocks of Convolutional Neural Networks using Genetic Algorithm in Transfer Learning

Quantifying the Hardness of Bioactivity Prediction Tasks for Transfer Learning

Journal of Chemical Information and Modeling


HLA-TAPAS pipeline for HLA association and fine-mapping studies

Approaching Genetics Through the MHC Lens: Tools and Methods for HLA Research

A high-resolution HLA reference panel capturing global population diversity enables multi-ethnic fine-mapping in HIV host response

Ancient Trans-Species Polymorphism at the Major Histocompatibility Complex in Primates


Developing brain Region Annotation With Expectation-Maximization

Multi-channel 4D parametrized Atlas of Macro- and Microstructural Neonatal Brain Development

Reproducible Large-Scale Neuroimaging Studies with the OpenMOLE Workflow Management System

Regional Differences in Gamma-Aminobutyric Acid and Glutamate Concentrations in the Healthy Newborn Brain

Effect of schizophrenia common variants on infant brain volumes: cross-sectional study in 207 term neonates in developing Human Connectome Project


The purpose of Raster Fairy is to transform any kind of 2D point cloud into a regular raster whilst trying to preserve the neighborhood relations that were present in the original cloud. A typical use case is if you have a similarity clustering of images and want to show the images in a regular table structure.

Improving GAN Training via Binarized Representation Entropy (BRE) Regularization

Integrating contrastive learning with dynamic models for reinforcement learning from images

CLOUD: Contrastive Learning of Unsupervised Dynamics

Improving performance in colorectal cancer histology decomposition using deep and ensemble machine learning

A General Framework for Visualization of Sound Collections in Musical Interfaces

Synthesizing Bidirectional Temporal States of Knee Osteoarthritis Radiographs with Cycle-Consistent Generative Adversarial Neural Networks


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

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

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

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

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


AUCell: score single cells with gene regulatory networks

Orthogonal cytokine engineering enables novel synthetic effector states escaping canonical exhaustion in tumor-rejecting CD8+ T cells

Integrative analysis of spatial transcriptome with single-cell transcriptome and single-cell epigenome in mouse lungs after immunization

Protocol for the isolation of CD8+ tumor-infiltrating lymphocytes from human tumors and their characterization by single-cell immune profiling and multiome


libstempo — a Python wrapper for tempo2

THE NANOGRAV NINE-YEAR DATA SET: EXCESS NOISE IN MILLISECOND PULSAR ARRIVAL TIMES

A Second Chromatic Timing Event of Interstellar Origin toward PSR J1713+0747

Timing of young radio pulsars – II. Braking indices and their interpretation

Monthly Notices of the Royal Astronomical Society

The impact of glitches on young pulsar rotational evolution

The NANOGrav 11 yr Data Set: Evolution of Gravitational-wave Background Statistics

Forecasting Pulsar Timing Array Sensitivity to Anisotropy in the Stochastic Gravitational Wave Background

Joint search for isolated sources and an unresolved confusion background in pulsar timing array data

Constraining alternative polarization states of gravitational waves from individual black hole binaries using pulsar timing arrays

Disentangling Multiple Stochastic Gravitational Wave Background Sources in PTA Data Sets

Taming outliers in pulsar-timing data sets with hierarchical likelihoods and Hamiltonian sampling


Fuente de datos de los reportajes y proyectos de periodismo de investigación y datos de DATADISTA

A modified SEIR model to predict the COVID-19 outbreak in Spain and Italy: Simulating control scenarios and multi-scale epidemics

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

Covid-19: Open-Data Resources for Monitoring, Modeling, and Forecasting the Epidemic

Data and code release for Carleton, Cornetet, Huybers, Meng & Proctor (forthcoming, PNAS), "Global evidence for ultraviolet radiation decreasing COVID-19 growth rates"

A Bayesian - Deep Learning model for estimating Covid-19 evolution in Spain

A hierarchical spatio-temporal model to analyze relative risk variations of COVID-19: a focus on Spain, Italy and Germany

Stochastic environmental research and risk assessment : research journal

Open Data Resources for Fighting COVID-19

Factores asociados a la incidencia y la mortalidad por COVID-19 en las comunidades autónomas

COVID19-Tracker: una aplicación Shiny para analizar datos de la epidemia de SARS-CoV-2 en España./ [COVID19-Tracker: a shiny app to analise data on SARS-CoV-2 epidemic in Spain].

A scaling approach to estimate the age-dependent COVID-19 infection fatality ratio from incomplete data


CoLoRe - Cosmological Lofty Realizations

The Completed SDSS-IV Extended Baryon Oscillation Spectroscopic Survey: Baryon Acoustic Oscillations with Lyα Forests

Simulated multitracer analyses with HI intensity mapping

LYACOLORE: synthetic datasets for current and future Lyman-alpha forest BAO surveys

Journal of Cosmology and Astroparticle Physics

CoLoRe: fast cosmological realisations over large volumes with multiple tracers

The Alcock–Paczyński effect from Lyman-α forest correlations: analysis validation with synthetic data

Packed Ultra-wideband Mapping Array (PUMA): Astro2020 RFI Response

FITS Data Source for Apache Spark

The effect of quasar redshift errors on Lyman-α forest correlation functions

Analysing billion-objects catalogue interactively: Apache Spark for physicists

Synthetic spectra for Lyman-α forest analysis in the Dark Energy Spectroscopic Instrument


Efficient Inference for Big Models

CPM: A Large-scale Generative Chinese Pre-trained Language Model

CPM-2: Large-scale Cost-effective Pre-trained Language Models

EVA: An Open-Domain Chinese Dialogue System with Large-Scale Generative Pre-Training

Understanding LLMs: A Comprehensive Overview from Training to Inference

BMInf: An Efficient Toolkit for Big Model Inference and Tuning

Proceedings of the 60th Annual Meeting of the Association for Computational Linguistics: System Demonstrations


Solve automatic numerical differentiation problems in one or more variables.

A statistical framework for generating microstructures of two-phase random materials: application to fatigue analysis

A robust and efficient algorithm to find profile likelihood confidence intervals

Comparative Analysis of Behavioral Models for Adaptive Learning in Changing Environments

New Q-Newton's method meets Backtracking line search: good convergence guarantee, saddle points avoidance, quadratic rate of convergence, and easy implementation

A fast and simple modification of Newton's method helping to avoid saddle points

Backtracking New Q-Newton's method: a good algorithm for optimization and solving systems of equations

LOTUS: A (Non-) LTE Optimization Tool for Uniform Derivation of Stellar Atmospheric Parameters

Forecasts for cosmological measurements based on the angular power spectra of AGN and clusters of galaxies in the SRG/eROSITA all-sky survey


Tigramite is a python package for causal inference with a focus on time series data. The Tigramite documentation is at

Detecting and quantifying causal associations in large nonlinear time series datasets

Conditional independence testing based on a nearest-neighbor estimator of conditional mutual information

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

High-recall causal discovery for autocorrelated time series with latent confounders

Estimating causal networks in biosphere–atmosphere interaction with the PCMCI approach

Reconstructing regime-dependent causal relationships from observational time series

Chaos An Interdisciplinary Journal of Nonlinear Science

Necessary and sufficient graphical conditions for optimal adjustment sets in causal graphical models with hidden variables

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

CUTS: Neural Causal Discovery from Irregular Time-Series Data

Dynamic contextual influences on social motivation and behavior in schizophrenia: a case-control network analysis


InMAP reduced-form air quality model for fine particulate matter (PM2.5)

Fine-scale damage estimates of particulate matter air pollution reveal opportunities for location-specific mitigation of emissions

A database for evaluating the InMAP, APEEP, and EASIUR reduced complexity air-quality modeling tools


Embedded finite element methods in Julia

Robust high-order unfitted finite elements by interpolation-based discrete extension

Geometrical discretisations for unfitted finite elements on explicit boundary representations

Space-time unfitted finite element methods for time-dependent problems on moving domains

Conditioning of a Hybrid High-Order Scheme on Meshes with Small Faces

Cut finite element discretizations of cell-by-cell EMI electrophysiology models

High order unfitted finite element discretizations for explicit boundary representations

Space-time unfitted finite elements on moving explicit geometry representations


Japanese morphological analysis engine written in pure Python

Combining Multimodal Behavioral Data of Gait, Speech, and Drawing for Classification of Alzheimer’s Disease and Mild Cognitive Impairment

fugashi, a Tool for Tokenizing Japanese in Python

Compositional Evaluation on Japanese Textual Entailment and Similarity

Let's Think Outside the Box: Exploring Leap-of-Thought in Large Language Models with Creative Humor Generation

EVJVQA CHALLENGE: MULTILINGUAL VISUAL QUESTION ANSWERING

Journal of Computer Science and Cybernetics

Analysis of Dialogue in Human-Human Collaboration in Minecraft

LREC 2022: THIRTEEN INTERNATIONAL CONFERENCE ON LANGUAGE RESOURCES AND EVALUATION


Dataflow QNN inference accelerator examples on FPGAs

BinaryCoP: Binary Neural Network-based COVID-19 Face-Mask Wear and Positioning Predictor on Edge Devices

SAMO: Optimised Mapping of Convolutional Neural Networks to Streaming Architectures

Pentimento: Data Remanence in Cloud FPGAs


educational microarchitectures for risc-v isa

An Efficient Runtime Validation Framework based on the Theory of Refinement


TensorFlowOnSpark brings TensorFlow programs to Apache Spark clusters.

Software Engineering Challenges of Deep Learning

Software Engineering and Advanced Applications

BigDL: A Distributed Deep Learning Framework for Big Data

Fast and Scalable Distributed Deep Convolutional Autoencoder for fMRI Big Data Analytics

Distributed Training and Inference of Deep Learning Models for Multi-Modal Land Cover Classification

A Scalable Platform for Distributed Object Tracking Across a Many-Camera Network


Official implementations for various pre-training models of ERNIE-family, covering topics of Language Understanding & Generation, Multimodal Understanding & Generation, and beyond.

Pre-trained models for natural language processing: A survey

ERNIE: Enhanced Representation through Knowledge Integration

ERNIE 2.0: A Continual Pre-training Framework for Language Understanding

ERNIE-GEN: An Enhanced Multi-Flow Pre-training and Fine-tuning Framework for Natural Language Generation

UER: An Open-Source Toolkit for Pre-training Models

ERNIE-M: Enhanced Multilingual Representation by Aligning Cross-lingual Semantics with Monolingual Corpora

Correcting Chinese Spelling Errors with Phonetic Pre-training

Meeting of the Association for Computational Linguistics

ERNIE-Doc: A Retrospective Long-Document Modeling Transformer

Learning Adaptive Segmentation Policy for Simultaneous Translation

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

ERNIE-Gram: Pre-Training with Explicitly N-Gram Masked Language Modeling for Natural Language Understanding


Bring data to life with SVG, Canvas and HTML. :bar_chart::chart_with_upwards_trend::tada:

Exploring TCGA Pan-Cancer Data at the UCSC Cancer Genomics Browser

Categorizing the Content of GitHub README Files

Lotus Base: An integrated information portal for the model legume Lotus japonicus

Converting Basic D3 Charts into Reusable Style Templates

Designing and defining dynamic protein cage nanoassemblies in solution

PoSSuM v.2.0: data update and a new function for investigating ligand analogs and target proteins of small-molecule drugs

A Search for Improved Performance in Regular Expressions

Understanding Public Opinions from Geosocial Media

ISPRS International Journal of Geo-Information

TissUUmaps 3: Improvements in interactive visualization, exploration, and quality assessment of large-scale spatial omics data

Innovative Visualizations Shed Light on Avian Nocturnal Migration


Variational autoencoders for collaborative filtering

LightGCN: Simplifying and Powering Graph Convolution Network for Recommendation

Variational Autoencoders for Collaborative Filtering

A Troubling Analysis of Reproducibility and Progress in Recommender Systems Research

ACM transactions on office information systems

Revisiting the Performance of iALS on Item Recommendation Benchmarks

Markov Random Fields for Collaborative Filtering

Towards Amortized Ranking-Critical Training for Collaborative Filtering

User Embedding based Neighborhood Aggregation Method for Inductive Recommendation

Neural Variational Hybrid Collaborative Filtering

Density-Ratio Based Personalised Ranking from Implicit Feedback

Denoising Diffusion Recommender Model


DRAEM -- A discriminatively trained reconstruction embedding for surface anomaly detection

MIAD: A Maintenance Inspection Dataset for Unsupervised Anomaly Detection

Exploring Plain ViT Reconstruction for Multi-class Unsupervised Anomaly Detection

Component-aware anomaly detection framework for adjustable and logical industrial visual inspection

PKU-GoodsAD: A Supermarket Goods Dataset for Unsupervised Anomaly Detection and Segmentation


Deep Learning for Symbolic Mathematics

Deep Learning for Symbolic Mathematics

Mathematical Capabilities of ChatGPT

Symbolic Brittleness in Sequence Models: on Systematic Generalization in Symbolic Mathematics

Generating Symbolic Reasoning Problems with Transformer GANs


Benchmark of Deep Learning Models on Large Healthcare MIMIC Datasets

Uncertainty-Aware Time-to-Event Prediction using Deep Kernel Accelerated Failure Time Models

Improving the Accuracy of Progress Indication for Constructing Deep Learning Models

IEEE access : practical innovations, open solutions

Deep Learning to Jointly Schema Match, Impute, and Transform Databases


:hibiscus: reference-free transcriptome assembly for short and long reads

Systematic assessment of long-read RNA-seq methods for transcript identification and quantification

Reference-free assembly of long-read transcriptome sequencing data with RNA-Bloom2

RNA-Bloom provides lightweight reference-free transcriptome assembly for single cells


Code for reproducing f-AnoGAN training and anomaly scoring

Improved Training of Wasserstein GANs

Unsupervised Anomaly Detection with Generative Adversarial Networks to Guide Marker Discovery

The MVTec Anomaly Detection Dataset: A Comprehensive Real-World Dataset for Unsupervised Anomaly Detection

International Journal of Computer Vision

Beyond Dents and Scratches: Logical Constraints in Unsupervised Anomaly Detection and Localization

Proxy-bridged Image Reconstruction Network for Anomaly Detection in Medical Images

Machine Learning in NextG Networks via Generative Adversarial Networks

IEEE Transactions on Cognitive Communications and Networking

Anomaly Detection and Automatic Labeling for Solar Cell Quality Inspection Based on Generative Adversarial Network

The role of noise in denoising models for anomaly detection in medical images

EvAn: Neuromorphic Event-Based Sparse Anomaly Detection


CCTyper: Automatic detection and subtyping of CRISPR-Cas operons

Evolutionary classification of CRISPR–Cas systems: a burst of class 2 and derived variants

RNA-guided DNA insertion with CRISPR-associated transposases

Transposon-encoded CRISPR–Cas systems direct RNA-guided DNA integration

Programmable RNA editing with compact CRISPR-Cas13 systems from uncultivated microbes

CRISPRCasTyper: Automated Identification, Annotation, and Classification of CRISPR-Cas Loci

Type IV CRISPR–Cas systems are highly diverse and involved in competition between plasmids

CRISPRCasTyper: An automated tool for the identification, annotation and classification of CRISPR-Cas loci

Comparative Genomics of Xylella fastidiosa Explores Candidate Host-Specificity Determinants and Expands the Known Repertoire of Mobile Genetic Elements and Immunity Systems

Novel Type V-A CRISPR Effectors Are Active Nucleases with Expanded Targeting Capabilities

Comparative Analysis and Phylogenetic Insights of Cas14-Homology Proteins in Bacteria and Archaea


PyTorch implementation of MoCo v3 https//arxiv.org/abs/2104.02057

Accurate, Large Minibatch SGD: Training ImageNet in 1 Hour

An Empirical Study of Training Self-Supervised Vision Transformers

Diffusion Art or Digital Forgery? Investigating Data Replication in Diffusion Models

General Facial Representation Learning in a Visual-Linguistic Manner

Bridging the Gap to Real-World Object-Centric Learning

Connect, Not Collapse: Explaining Contrastive Learning for Unsupervised Domain Adaptation

Robust Contrastive Learning against Noisy Views

SSL4EO-S12: A Large-Scale Multi-Modal, Multi-Temporal Dataset for Self-Supervised Learning in Earth Observation

Learning Visual Representations via Language-Guided Sampling

Why Are Conditional Generative Models Better Than Unconditional Ones?


Monocular Depth Estimation Toolbox based on MMSegmentation.

DepthFormer: Exploiting Long-range Correlation and Local Information for Accurate Monocular Depth Estimation

BinsFormer: Revisiting Adaptive Bins for Monocular Depth Estimation

DatasetDM: Synthesizing Data with Perception Annotations Using Diffusion Models

RoboDepth: Robust Out-of-Distribution Depth Estimation under Corruptions

The RoboDepth Challenge: Methods and Advancements Towards Robust Depth Estimation


LightGCN: Simplifying and Powering Graph Convolution Network for Recommendation

Graph Learning based Recommender Systems: A Review

Sequential Recommendation via Stochastic Self-Attention

Investigating Accuracy-Novelty Performance for Graph-based Collaborative Filtering

Proceedings of the 45th International ACM SIGIR Conference on Research and Development in Information Retrieval

Neighborhood-Enhanced Supervised Contrastive Learning for Collaborative Filtering

IEEE transactions on knowledge and data engineering

NGAT4Rec: Neighbor-Aware Graph Attention Network For Recommendation

Coarse-to-Fine Knowledge-Enhanced Multi-Interest Learning Framework for Multi-Behavior Recommendation

Compressed Interaction Graph based Framework for Multi-behavior Recommendation

Challenging the Myth of Graph Collaborative Filtering: a Reasoned and Reproducibility-driven Analysis

Proceedings of the 17th ACM Conference on Recommender Systems

Parallel Knowledge Enhancement based Framework for Multi-behavior Recommendation

Proceedings of the 32nd ACM International Conference on Information and Knowledge Management


This repository contains data indexes from NIST's Genome in a Bottle project.

ABySS 2.0: resource-efficient assembly of large genomes using a Bloom filter

ARCS: scaffolding genome drafts with linked reads

Megabase-scale methylation phasing using nanopore long reads and NanoMethPhase

Combining callers improves the detection of copy number variants from whole-genome sequencing

European journal of human genetics : EJHG

High-coverage, long-read sequencing of Han Chinese trio reference samples

Accurate sequencing of DNA motifs able to form alternative (non-B) structures

DeBreak: Deciphering the exact breakpoints of structural variations using long sequencing reads

Managing genomic variant calling workflows with Swift/T

Evaluation of the Available Variant Calling Tools for Oxford Nanopore Sequencing in Breast Cancer

WFA-GPU: gap-affine pairwise read-alignment using GPUs


A PyTorch implementation of the 'FaceNet' paper for training a facial recognition model with Triplet Loss using the glint360k dataset. A pre-trained model using Triplet Loss is available for download.

FaceNet: A Unified Embedding for Face Recognition and Clustering

VGGFace2: A dataset for recognising faces across pose and age

Partial FC: Training 10 Million Identities on a Single Machine


[DEPRECATED] Repo for exploring multi-task learning approaches to learning sentence representations

GLUE: A Multi-Task Benchmark and Analysis Platform for Natural Language Understanding

VGCN-BERT: Augmenting BERT with Graph Embedding for Text Classification

Evaluations and Methods for Explanation through Robustness Analysis

On Masked Pre-training and the Marginal Likelihood


Natural Questions (NQ) contains real user questions issued to Google search, and answers found from Wikipedia by annotators. NQ is designed for the training and evaluation of automatic question answering systems.

A Survey on Machine Reading Comprehension: Tasks, Evaluation Metrics and Benchmark Datasets

Proving Test Set Contamination in Black Box Language Models

Recitation-Augmented Language Models

InPars-Light: Cost-Effective Unsupervised Training of Efficient Rankers

RAG Does Not Work for Enterprises


TPMCalculator quantifies mRNA abundance directly from the alignments by parsing BAM files

TPMCalculator: one-step software to quantify mRNA abundance of genomic features

A simple guide to de novo transcriptome assembly and annotation

PAM-altering SNP-based allele-specific CRISPR-Cas9 therapeutic strategies for Huntington’s disease

Molecular therapy. Methods & clinical development

Base editing strategies to convert CAG to CAA diminish the disease-causing mutation in Huntington's disease


The Distributed Generation Market Demand (dGen) model simulates customer adoption of distributed energy resources (DERs) for residential, commercial, and industrial entities in the United States and other countries.

Forecasting distributed energy resources adoption for power systems


Current version of the SuperLearner R package

Enteropathogen antibody dynamics and force of infection among children in low-resource settings

Comparison of Mortality and Major Cardiovascular Events Among Adults With Type 2 Diabetes Using Human vs Analogue Insulins

A Fundamental Measure of Treatment Effect Heterogeneity

Association of Cardiovascular Outcomes and Mortality With Sustained Long-Acting Insulin Only vs Long-Acting Plus Short-Acting Insulin Treatment

An Easy Implementation of CV-TMLE

Using machine learning to predict help-seeking among 2016–2018 Pregnancy Risk Assessment Monitoring System participants with postpartum depression symptoms

Doubly robust estimators for the average treatment effect under positivity violations: introducing the e-score.


Python client utilties for interacting with the neuPrint connectome analysis service

Information flow, cell types and stereotypy in a full olfactory connectome

Context-dependent representations of movement in Drosophila dopaminergic reinforcement pathways

Localized inhibition in the Drosophila mushroom body

Connectomic analysis of the Drosophila lateral neuron clock cells reveals the synaptic basis of functional pacemaker classes

The anterior paired lateral neuron normalizes odour-evoked activity in the Drosophila mushroom body calyx

Nested neural circuits generate distinct acoustic signals during Drosophila courtship

Interactions between specialized gain control mechanisms in olfactory processing


Normalizing Hi-C contact counts efficiently

HiC-Pro: an optimized and flexible pipeline for Hi-C data processing

Changes in genome organization of parasite-specific gene families during the Plasmodium transmission stages

CTCF loss has limited effects on global genome architecture in Drosophila despite critical regulatory functions

Measuring significant changes in chromatin conformation with ACCOST

covNorm: An R package for coverage based normalization of Hi-C and capture Hi-C data

Computational and structural biotechnology journal


bradner lab computation pipeline scripts

Response and resistance to BET bromodomain inhibitors in triple-negative breast cancer

POU2F3 is a master regulator of a tuft cell-like variant of small cell lung cancer

Recurrent somatic mutations in POLR2A define a distinct subset of meningiomas

MYB-QKI rearrangements in angiocentric glioma drive tumorigenicity through a tripartite mechanism

Transcription elongation factors represent in vivo cancer dependencies in glioblastoma

Positively selected enhancer elements endow osteosarcoma cells with metastatic competence

Small-molecule targeting of brachyury transcription factor addiction in chordoma

Histone hyperacetylation disrupts core gene regulatory architecture in rhabdomyosarcoma

Defining super-enhancer landscape in triple-negative breast cancer by multiomic profiling

Nucleoporin 153 links nuclear pore complex to chromatin architecture by mediating CTCF and cohesin binding


A great intro dataset for data exploration & visualization (alternative to iris).

Ecological Sexual Dimorphism and Environmental Variability within a Community of Antarctic Penguins (Genus Pygoscelis)

allisonhorst/palmerpenguins: v0.1.0

Feature Selection Tutorial with Python Examples


Creative Commons Attribution Share Alike 4.0 International

SDM-RDFizer: An RML Interpreter for the Efficient Creation of RDF Knowledge Graphs

International Conference on Information and Knowledge Management

FunMap: Efficient Execution of Functional Mappings for Knowledge Graph Creation

RocketRML - A NodeJS implementation of a use-case specific RML mapper

R2RML and RML Comparison for RDF Generation, their Rules Validation and Inconsistency Resolution

Dragoman: Efficiently Evaluating Declarative Mapping Languages over Frameworks for Knowledge Graph Creation


Intel® Software Guard Extensions SSL

Precision health data: Requirements, challenges and existing techniques for data security and privacy

SmashEx: Smashing SGX Enclaves Using Exceptions

Conference on Computer and Communications Security

SafeKeeper: Protecting Web Passwords using Trusted Execution Environments

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

IBBE-SGX: Cryptographic Group Access Control Using Trusted Execution Environments

ReplicaTEE: Enabling Seamless Replication of SGX Enclaves in the Cloud

Util::Lookup: Exploiting key decoding in cryptographic libraries

Trust Anchors in Software Defined Networks

A Comprehensive Benchmark Suite for Intel SGX

RAPTEE: Leveraging trusted execution environments for Byzantine-tolerant peer sampling services

SGX Switchless Calls Made Configless


Colorblind-Friendly Color Maps for R

Correlates of Health-Protective Behavior During the Initial Days of the COVID-19 Outbreak in Norway

Mapping molecular subtype specific alterations in breast cancer brain metastases identifies clinically relevant vulnerabilities

Motixafortide and G-CSF to mobilize hematopoietic stem cells for autologous transplantation in multiple myeloma: a randomized phase 3 trial

Functional meta-omics provide critical insights into long- and short-read assemblies

Characterization and evolutionary origin of novel C 2 H 2 zinc finger protein (ZNF648) required for both erythroid and megakaryocyte differentiation in humans.

Hematological and gene co-expression network analyses of high-risk beef cattle defines immunological mechanisms and biological complexes involved in bovine respiratory disease and weight gain

Temporal Comparison of Microbial Community Structure in an Australian Winery

Synergistic effect of short- and long-read sequencing on functional meta-omics


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

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

Stellar Population Inference with Prospector

The Astrophysical Journal Supplement Series

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

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

A Theory for the Variation of Dust Attenuation Laws in Galaxies

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

Monthly Notices of the Royal Astronomical Society

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

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

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

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


A standard framework for modelling Deep Learning Models for tabular data

TabNet: Attentive Interpretable Tabular Learning

AutoInt: Automatic Feature Interaction Learning via Self-Attentive Neural Networks

PROCEEDINGS OF THE 28TH ACM INTERNATIONAL CONFERENCE ON INFORMATION & KNOWLEDGE MANAGEMENT (CIKM '19)

Revisiting Deep Learning Models for Tabular Data

TabTransformer: Tabular Data Modeling Using Contextual Embeddings

Neural Oblivious Decision Ensembles for Deep Learning on Tabular Data

PyTorch Tabular: A Framework for Deep Learning with Tabular Data

GANDALF: Gated Adaptive Network for Deep Automated Learning of Features


Bluetooth experimentation framework for Broadcom and Cypress chips.

InternalBlue - Bluetooth Binary Patching and Experimentation Framework

International Conference on Mobile Systems, Applications, and Services

Attacks on Wireless Coexistence: Exploiting Cross-Technology Performance Features for Inter-Chip Privilege Escalation

Firmware Insider: Bluetooth Randomness is Mostly Random


High-performance simulator of quantum circuits

Intel Quantum Simulator: a cloud-ready high-performance simulator of quantum circuits

Secure quantum computing for healthcare sector: A short analysis

Evaluation of Intel Memory Drive Technology Performance for Scientific Applications

PROCEEDINGS OF WORKSHOP ON MEMORY CENTRIC HIGH PERFORMANCE COMPUTING (MCHPC'18)

Evaluation of Quantum Approximate Optimization Algorithm based on the approximation ratio of single samples.

Fast simulation of quantum algorithms using circuit optimization


Deep Learning to Improve Breast Cancer Detection on Screening Mammography

Breast Cancer Diagnosis in Two-View Mammography Using End-to-End Trained EfficientNet-Based Convolutional Network

Breast Cancer Dataset, Classification and Detection Using Deep Learning

Beyond Fine-tuning: Classifying High Resolution Mammograms using Function-Preserving Transformations

Multi-Task Fusion for Improving Mammography Screening Data Classification

Meta-repository of screening mammography classifiers

A Novel Fragile Zero-Watermarking Algorithm for Digital Medical Images

An XAI Approach to Deep Learning Models in the Detection of Ductal Carcinoma in Situ.


Conditional Image Synthesis With Auxiliary Classifier GANs

Skip-Thought Vectors

TAC-GAN - Text Conditioned Auxiliary Classifier Generative Adversarial Network


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

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

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

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


Co-Scale Conv-Attentional Image Transformers

All Tokens Matter: Token Labeling for Training Better Vision Transformers

IoU-aware Single-stage Object Detector for Accurate Localization

ViDT: An Efficient and Effective Fully Transformer-based Object Detector

An Extendable, Efficient and Effective Transformer-based Object Detector


Unsupervised Person Re-identification: Clustering and Fine-tuning


Bi-Real Net: Enhancing the Performance of 1-bit CNNs With Improved Representational Capability and Advanced Training Algorithm. In ECCV 2018 and IJCV

Machine Learning at the Network Edge: A Survey

Bi-Real Net: Binarizing Deep Network Towards Real-Network Performance

Input Layer Binarization with Bit-Plane Encoding

On-Device Learning with Binary Neural Networks


Analysing user identity via time-sensitive semantic edit distance (t-SED): a case study of Russian trolls on Twitter

Identifying and Analyzing Health-Related Themes in Disinformation Shared by Conservative and Liberal Russian Trolls on Twitter

International journal of environmental research and public health

Early detection of internet trolls: Introducing an algorithm based on word pairs / single words multiple repetition ratio

Introductory data science across disciplines, using Python, case studies, and industry consulting projects

Consistent Estimation of Identifiable Nonparametric Mixture Models from Grouped Observations

Russian trolls speaking Russian: Regional Twitter operations and MH17

Understanding Troll Writing as a Linguistic Phenomenon

Abusive Language Recognition in Russian

Workshop on Balto-Slavic Natural Language Processing

Adversaries Can Misuse Combinations of Safe Models


Virtual Clothing Try-on with Deep Learning. PyTorch reproduction of SwapNet by Raj et al. 2018. Now with Docker support!

Neural Body Fitting: Unifying Deep Learning and Model-Based Human Pose and Shape Estimation

Look into Person: Joint Body Parsing & Pose Estimation Network and a New Benchmark


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

Event-Centric Hierarchical Representation for Dense Video Captioning

IEEE Transactions on Circuits and Systems for Video Technology

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

Event and Entity Extraction from Generated Video Captions


Autoregressive Entity Retrieval

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

Multilingual Denoising Pre-training for Neural Machine Translation

Autoregressive Entity Retrieval

Improving Entity Linking by Modeling Latent Relations between Mentions

CM3: A Causal Masked Multimodal Model of the Internet

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

Multilingual Autoregressive Entity Linking

ICLR - Autoregressive Entity Retrieval

International Conference on Learning Representations

How can voting mechanisms improve the robustness and generalizability of toponym disambiguation?

TABi: Type-Aware Bi-Encoders for Open-Domain Entity Retrieval


The Low Impact version of the Organic Basics website


:package: Non-parametric Causal Effects Based on Modified Treatment Policies :crystal_ball:

Nonparametric Causal Effects Based on Longitudinal Modified Treatment Policies

When effects cannot be estimated: redefining estimands to understand the effects of naloxone access laws

Comparison of a Target Trial Emulation Framework vs Cox Regression to Estimate the Association of Corticosteroids With COVID-19 Mortality

Effect of Sepsis on Death as Modified by Solid Organ Transplantation


FC-DenseNet in PyTorch for Semantic Segmentation

U-Net: Convolutional Networks for Biomedical Image Segmentation

Densely Connected Convolutional Networks

The One Hundred Layers Tiramisu: Fully Convolutional DenseNets for Semantic Segmentation

Local Temperature Scaling for Probability Calibration

Langevin Cooling for Domain Translation


Simple Text-Generator with OpenAI gpt-2 Pytorch Implementation

Attention Is All You Need

Code Prediction by Feeding Trees to Transformers

TURINGBENCH: A Benchmark Environment for Turing Test in the Age of Neural Text Generation

Don’t take “nswvtnvakgxpm” for an answer –The surprising vulnerability of automatic content scoring systems to adversarial input

International Conference on Computational Linguistics

Incremental Text-to-Speech Synthesis Using Pseudo Lookahead With Large Pretrained Language Model

Stochastic Parrots Looking for Stochastic Parrots: LLMs are Easy to Fine-Tune and Hard to Detect with other LLMs

Low-Latency Incremental Text-to-Speech Synthesis with Distilled Context Prediction Network


WeatherBench: A benchmark dataset for data-driven weather forecasting

Journal of Advances in Modeling Earth Systems

Data‐Driven Medium‐Range Weather Prediction With a Resnet Pretrained on Climate Simulations: A New Model for WeatherBench

Forecasting Global Weather with Graph Neural Networks

WeatherBench 2: A benchmark for the next generation of data-driven global weather models

Chronos: Learning the Language of Time Series

Towards physics-inspired data-driven weather forecasting: integrating data assimilation with a deep spatial-transformer-based U-NET in a case study with ERA5

Towards physically consistent data-driven weather forecasting: Integrating data assimilation with equivariance-preserving deep spatial transformers

WeatherBench Probability: A benchmark dataset for probabilistic medium-range weather forecasting along with deep learning baseline models

Purely data-driven medium-range weather forecasting achieves comparable skill to physical models at similar resolution

Physics-Inspired Adaptions to Low-Parameter Neural Network Weather Forecast Systems


Ontologies of Linguistic Annotation. Machine-readable tagsets and annotation schemata for more than 100 languages.

Annotation Interoperability for the Post-ISOCat Era

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

The Index Thomisticus Treebank as Linked Data in the LiLa Knowledge Base

Zenodo (CERN European Organization for Nuclear Research)


LTR_retriever is a highly accurate and sensitive program for identification of LTR retrotransposons; The LTR Assembly Index (LAI) is also included in this package.

Assessing genome assembly quality using the LTR Assembly Index (LAI)

TEsorter: An accurate and fast method to classify LTR-retrotransposons in plant genomes

A high-quality reference genome of wild Cannabis sativa

European maize genomes highlight intraspecies variation in repeat and gene content

The spinach YY genome reveals sex chromosome evolution, domestication, and introgression history of the species

A High-Quality Haplotype-Resolved Genome of Common Bermudagrass (Cynodon dactylon L.) Provides Insights Into Polyploid Genome Stability and Prostrate Growth

The Jasmine (Jasminum sambac) Genome Provides Insight into the Biosynthesis of Flower Fragrances and Jasmonates

基因组蛋白质组与生物信息学报

Comparative Genomic Analysis and Metabolic Potential Profiling of a Novel Culinary-Medicinal Mushroom, Hericium rajendrae (Basidiomycota)

A gap-free reference genome reveals structural variations associated with flowering time in rapeseed (Brassica napus)

Decoupling subgenomes within hybrid lavandin provide new insights into speciation and monoterpenoid diversification of Lavandula


ParaMonte: Parallel Monte Carlo and Machine Learning Library for Python, MATLAB, Fortran, C++, C.

A Multilevel Empirical Bayesian Approach to Estimating the Unknown Redshifts of 1366 BATSE Catalog Long-duration Gamma-Ray Bursts

ParaMonte: A high-performance serial/parallel Monte Carlo simulation library for C, C++, Fortran

Fast fully-reproducible serial/parallel Monte Carlo and MCMC simulations and visualizations via ParaMonte::Python library

ParaDRAM: A Cross-Language Toolbox for Parallel High-Performance Delayed-Rejection Adaptive Metropolis Markov Chain Monte Carlo Simulations

MatDRAM: A pure-MATLAB Delayed-Rejection Adaptive Metropolis-Hastings Markov Chain Monte Carlo Sampler


Synthesis Format Conversion Tool

A High-Level LTL Synthesis Format: TLSF v1.0

The 4th Reactive Synthesis Competition (SYNTCOMP 2017): Benchmarks, Participants & Results

The 3rd Reactive Synthesis Competition (SYNTCOMP 2016): Benchmarks, Participants & Results

The Reactive Synthesis Competition: SYNTCOMP 2016 and Beyond

The Temporal Logic Synthesis Format TLSF v1.2

Synthesis of Compact Strategies for Coordination Programs

Tools and Algorithms for the Construction and Analysis of Systems


B- and T-cell receptor sequence annotation, simulation, clonal family and germline inference, and affinity prediction

Consistency of VDJ Rearrangement and Substitution Parameters Enables Accurate B Cell Receptor Sequence Annotation

Likelihood-Based Inference of B Cell Clonal Families

Gene-Specific Substitution Profiles Describe the Types and Frequencies of Amino Acid Changes during Antibody Somatic Hypermutation

Per-sample immunoglobulin germline inference from B cell receptor deep sequencing data

Kappa chain maturation helps drive rapid development of an infant HIV-1 broadly neutralizing antibody lineage

Tracing Antibody Repertoire Evolution by Systems Phylogeny

Using B cell receptor lineage structures to predict affinity

Inference of B cell clonal families using heavy/light chain pairing information

Diversity and Function of Maternal HIV-1-Specific Antibodies at the Time of Vertical Transmission

A diverse collection of B cells responded to HIV infection in infant BG505


Crawler for linguistic corpora

Building Machine Translation Systems for the Next Thousand Languages

Language ID in the Wild: Unexpected Challenges on the Path to a Thousand-Language Web Text Corpus

Trafilatura: A Web Scraping Library and Command-Line Tool for Text Discovery and Extraction

Meeting of the Association for Computational Linguistics

A Fast, Compact, Accurate Model for Language Identification of Codemixed Text

English–Welsh Cross-Lingual Embeddings


Theano-based implementation of Deep Q-learning

Playing Atari with Deep Reinforcement Learning

Weight Normalization: A Simple Reparameterization to Accelerate Training of Deep Neural Networks

Unmasking Clever Hans predictors and assessing what machines really learn

Adversarial Attacks on Neural Network Policies

Revisiting the Softmax Bellman Operator: New Benefits and New Perspective

Revisiting the Softmax Bellman Operator: Theoretical Properties and Practical Benefits.


Caffe for Sparse Convolutional Neural Network

Faster CNNs with Direct Sparse Convolutions and Guided Pruning

Enabling Sparse Winograd Convolution by Native Pruning

Escoin: Efficient Sparse Convolutional Neural Network Inference on GPUs

Compression of Deep Convolutional Neural Networks under Joint Sparsity Constraints


solo-learn: a library of self-supervised methods for visual representation learning powered by Pytorch Lightning

A Simple Framework for Contrastive Learning of Visual Representations

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

Emerging Properties in Self-Supervised Vision Transformers

Exploring Simple Siamese Representation Learning

Unsupervised Learning of Visual Features by Contrasting Cluster Assignments

Improved Baselines with Momentum Contrastive Learning

Barlow Twins: Self-Supervised Learning via Redundancy Reduction

VICReg: Variance-Invariance-Covariance Regularization for Self-Supervised Learning

With a Little Help from My Friends: Nearest-Neighbor Contrastive Learning of Visual Representations

Whitening for Self-Supervised Representation Learning


Numerical integration in arbitrary dimensions on the GPU using PyTorch / TF / JAX

torchquad: Numerical Integration in Arbitrary Dimensions with PyTorch

Neural Integro-Differential Equations

Distribution Theoretic Semantics for Non-Smooth Differentiable Programming


A Deep Learning Toolkit for DTI, Drug Property, PPI, DDI, Protein Function Prediction (Bioinformatics)

DeepDTA: deep drug–target binding affinity prediction

DeepPurpose: a Deep Learning Based Drug Repurposing Toolkit.

Trends and Potential of Machine Learning and Deep Learning in Drug Study at Single-Cell Level

MolDesigner: Interactive Design of Efficacious Drugs with Deep Learning

ImDrug: A Benchmark for Deep Imbalanced Learning in AI-aided Drug Discovery

Uni-QSAR: an Auto-ML Tool for Molecular Property Prediction

Integrated Computational Approaches for Drug Design Targeting Cruzipain

International journal of molecular sciences


MLPerf™  Tiny is an ML benchmark suite for extremely low-power systems such as microcontrollers

Benchmarking TinyML Systems: Challenges and Direction

MLPerf Tiny Benchmark

hls4ml: An Open-Source Codesign Workflow to Empower Scientific Low-Power Machine Learning Devices

Auritus: An Open-Source Optimization Toolkit for Training and Development of Human Movement Models and Filters Using Earables

Proceedings of the ACM on interactive, mobile, wearable and ubiquitous technologies

An Exploration of State-of-the-Art Automation Frameworks for FPGA-Based DNN Acceleration

U-TOE: Universal TinyML On-board Evaluation Toolkit for Low-Power IoT

Towards Global Neural Network Abstractions with Locally-Exact Reconstruction


Analyses your Java applications for open-source dependencies with known vulnerabilities, using both static analysis and testing to determine code context and usage for greater accuracy.  https://eclipse.github.io/steady/

A Manually-Curated Dataset of Fixes to Vulnerabilities of Open-Source Software

Detection, assessment and mitigation of vulnerabilities in open source dependencies

Automated Mapping of Vulnerability Advisories onto their Fix Commits in Open Source Repositories

VulnEx: Exploring Open-Source Software Vulnerabilities in Large Development Organizations to Understand Risk Exposure

Detecting Security Fixes in Open-Source Repositories using Static Code Analyzers


An Open-Source Package for Neural Relation Extraction (NRE)

A Survey on Knowledge Graphs: Representation, Acquisition, and Applications

IEEE transactions on neural networks and learning systems

Long-tail Relation Extraction via Knowledge Graph Embeddings and Graph Convolution Networks

Learning from Context or Names? An Empirical Study on Neural Relation Extraction

OpenNRE: An Open and Extensible Toolkit for Neural Relation Extraction

Differentiable Prompt Makes Pre-trained Language Models Better Few-shot Learners

Fine-tuning Pre-Trained Transformer Language Models to Distantly Supervised Relation Extraction

Improving Relation Extraction by Pre-trained Language Representations

Relation Adversarial Network for Low Resource Knowledge Graph Completion

Collaborative Policy Learning for Open Knowledge Graph Reasoning

Representation Learning for Natural Language Processing


An Industrial Graph Neural Network Framework

Graph Neural Networks: A Review of Methods and Applications

Deep Learning on Graphs: A Survey

Graph Neural Networks: Methods, Applications, and Opportunities

Billion-scale Pre-trained E-commerce Product Knowledge Graph Model

The Evolution of Distributed Systems for Graph Neural Networks and Their Origin in Graph Processing and Deep Learning: A Survey

A Systematic Review of Deep Graph Neural Networks: Challenges, Classification, Architectures, Applications & Potential Utility in Bioinformatics


Larq Compute Engine: Design, Benchmark, and Deploy State-of-the-Art Binarized Neural Networks

Bipolar Morphological Neural Networks: Gate-Efficient Architecture for Computer Vision

Dynamically reconfigurable variable-precision sparse-dense matrix acceleration in Tensorflow Lite


Simulation of High Aspect Ratio aeroplanes and wind turbines in Python: a nonlinear aeroelastic code

Benchmarking different fidelities in wind turbine aerodynamics under yaw

SCIENCE OF MAKING TORQUE FROM WIND (TORQUE 2020), PTS 1-5


SCIP - Solving Constraint Integer Programs

The SCIP Optimization Suite 9.0

A Unified Framework for Symmetry Handling

Combining Precision Boosting with LP Iterative Refinement for Exact Linear Optimization

Certified Constraint Propagation and Dual Proof Analysis in a
  Numerically Exact MIP Solver


Apache Commons IO

Deep API Learning

A Closer Look at Real-World Patches

PROCEEDINGS 2018 IEEE INTERNATIONAL CONFERENCE ON SOFTWARE MAINTENANCE AND EVOLUTION (ICSME)

A comprehensive study of pseudo-tested methods

How well does LLM generate security tests?

The Used, the Bloated, and the Vulnerable: Reducing the Attack Surface of an Industrial Application

An approach and benchmark to detect behavioral changes of commits in continuous integration

Mutation Testing in Evolving Systems: Studying the Relevance of Mutants to Code Evolution

On the test smells detection: an empirical study on the JNose Test accuracy

Predicting Crash Fault Residence via Simplified Deep Forest Based on A Reduced Feature Set


PyTorch pre-trained model for real-time interest point detection, description, and sparse tracking (https://arxiv.org/abs/1712.07629)

SuperPoint: Self-Supervised Interest Point Detection and Description

SuperGlue: Learning Feature Matching with Graph Neural Networks

Combining Feature Correspondence With Parametric Chamfer Alignment: Hybrid Two-Stage Registration for Ultra-Widefield Retinal Images

IEEE transactions on bio-medical engineering

RaP-Net: A Region-wise and Point-wise Weighting Network to Extract Robust Features for Indoor Localization

Integrating Sparse Learning-Based Feature Detectors into Simultaneous Localization and Mapping—A Benchmark Study

Robust Alignment of Multi-Exposed Images With Saturated Regions

Looking Beyond Corners: Contrastive Learning of Visual Representations for Keypoint Detection and Description Extraction


End-to-End Vectorized HD-map Construction with Piecewise Bezier Curve

PivotNet: Vectorized Pivot Learning for End-to-end HD Map Construction

MachMap: End-to-End Vectorized Solution for Compact HD-Map Construction

Is Your HD Map Constructor Reliable under Sensor Corruptions?


PyTorch Implementation of ProDiff (ACM-MM'22) with a Extremely-Fast diffusion speech synthesis pipeline

ProDiff: Progressive Fast Diffusion Model For High-Quality Text-to-Speech

FastDiff: A Fast Conditional Diffusion Model for High-Quality Speech Synthesis

CoMoSpeech: One-Step Speech and Singing Voice Synthesis via Consistency Model

ResGrad: Residual Denoising Diffusion Probabilistic Models for Text to Speech

Schrodinger Bridges Beat Diffusion Models on Text-to-Speech Synthesis


Torch code for our CVPR 2018 paper "Residual Dense Network for Image Super-Resolution" (Spotlight)

Residual Dense Network for Image Restoration

A Survey of Deep Learning for Scientific Discovery

edge-SR: Super-Resolution For The Masses

Back-Projection Pipeline

Multi-Grid Back-Projection Networks


A real-time capable exploration and inspection path planner (next best view planning)

Autonomous Teamed Exploration of Subterranean Environments using Legged and Aerial Robots

Semantics-aware Exploration and Inspection Path Planning

Visual-Inertial Odometry-enhanced Geometrically Stable ICP for Mapping Applications using Aerial Robots

Realizing the Aerial Robotic Worker for Inspection Operations

Autonomous Exploration and General Visual Inspection of Ship Ballast Water Tanks using Aerial Robots

3D Multi-Robot Exploration with a Two-Level Coordination Strategy and Prioritization


[CVPR2023] A faster, smaller, and better text-to-image model for large-scale training

DF-GAN: A Simple and Effective Baseline for Text-to-Image Synthesis

GALIP: Generative Adversarial CLIPs for Text-to-Image Synthesis


Deformable GANs for Pose-based Human Image Generation

Appearance and Pose-Conditioned Human Image Generation Using Deformable GANs

A Shared Representation for Photorealistic Driving Simulators

IEEE Transactions on Intelligent Transportation Systems


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

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

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

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

bioRxiv : the preprint server for biology

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

Efficient merging of genome profile alignments


Gaussian mixtures and image processing implemented in python

The Dark Energy Survey: Data Release 1

The Astrophysical Journal Supplement Series

Dark Energy Survey Year 1 Results: The Photometric Data Set for Cosmology

First Measurement of the Hubble Constant from a Dark Standard Siren using the Dark Energy Survey Galaxies and the LIGO/Virgo Binary–Black-hole Merger GW170814

Stellar Streams Discovered in the Dark Energy Survey

Practical Weak-lensing Shear Measurement with Metacalibration

Dark Energy Survey year 1 results: Constraints on extended cosmological models from galaxy clustering and weak lensing

Dark Energy Survey Year 1 Results: redshift distributions of the weak-lensing source galaxies

Monthly Notices of the Royal Astronomical Society

The DES Science Verification weak lensing shear catalogues

Dark Energy Survey Year 3 Results: Photometric Data Set for Cosmology

GREAT3 results - I. Systematic errors in shear estimation and the impact of real galaxy morphology


Matlab interface for OSQP

An active-set method for sparse approximations. Part I: Separable ℓ_1 terms

An active-set method for sparse approximations. Part II: General piecewise-linear terms


A general-purpose, deep learning-first library for constrained optimization in PyTorch

Controlled Sparsity via Constrained Optimization or: How I Learned to Stop Tuning Penalties and Love Constraints

Nonparametric Partial Disentanglement via Mechanism Sparsity: Sparse Actions, Interventions and Sparse Temporal Dependencies

L_0onie: Compressing COINs with L_0-constraints

Balancing Act: Constraining Disparate Impact in Sparse Models

Active Reinforcement Learning for Robust Building Control


OpenAI CLIP text encoders for multiple languages!

Learning Transferable Visual Models From Natural Language Supervision

Language-agnostic BERT Sentence Embedding

Cross-lingual and Multilingual CLIP

LREC 2022: THIRTEEN INTERNATIONAL CONFERENCE ON LANGUAGE RESOURCES AND EVALUATION

SpeechCLIP: Integrating Speech with Pre-Trained Vision and Language Model

Exploiting Cultural Biases via Homoglyphs in Text-to-Image Synthesis

MuMUR : Multilingual Multimodal Universal Retrieval

Translation-Enhanced Multilingual Text-to-Image Generation

PR-MCS: Perturbation Robust Metric for MultiLingual Image Captioning

Towards Zero-shot Cross-lingual Image Retrieval and Tagging

Babel-ImageNet: Massively Multilingual Evaluation of Vision-and-Language Representations


Fast Gaussian-process inference using Vecchia approximations

A General Framework for Vecchia Approximations of Gaussian Processes

A class of multi-resolution approximations for large spatial datasets

Vecchia–Laplace approximations of generalized Gaussian processes for big non-Gaussian spatial data

Computational Statistics & Data Analysis


Provable API for Ethereum smart contracts

A Blockchain-based Approach for Data Accountability and Provenance Tracking

A Blockchain-based Trust System for Decentralised Applications: When trustless needs trust

Smart Contracts for Multiagent Plan Execution in Untrusted Cyber-physical Systems

Introduction to Decentralization and Smart Contracts

DISL: Fueling Research with A Large Dataset of Solidity Smart Contracts


Cut Generator Library

The Cut and Play Algorithm: Computing Nash Equilibria via Outer Approximations.

Preprocessing and cutting planes with conflict graphs

An Abstract Model for Branch-and-Cut


Microscope control software

Mammalian gene expression variability is explained by underlying cell state

A transcriptomic axis predicts state modulation of cortical interneurons

Perturb-tracing enables high-content screening of multiscale 3D genome regulators

Effects of individual base-pairs on in vivo target search and destruction kinetics of bacterial small RNA

Volumetric super-resolution imaging by serial ultrasectioning and stochastic optical reconstruction microscopy in mouse neural tissue

A genome-wide single-cell 3D genome atlas of lung cancer progression


This is an open-source implementation of the ITU P.808 standard for "Subjective evaluation of speech quality with a crowdsourcing approach" (see https://www.itu.int/rec/T-REC-P.808/en). It uses Amazon Mechanical Turk as the crowdsourcing platform. It includes implementations for Absolute Category Rating (ACR), Degradation Category Rating (DCR), and Comparison Category Rating (CCR).

The INTERSPEECH 2020 Deep Noise Suppression Challenge: Datasets, Subjective Testing Framework, and Challenge Results

Interspeech 2021 Deep Noise Suppression Challenge

The INTERSPEECH 2020 Deep Noise Suppression Challenge: Datasets, Subjective Speech Quality and Testing Framework

An Open source Implementation of ITU-T Recommendation P.808 with Validation

ICASSP 2021 Acoustic Echo Cancellation Challenge: Datasets, Testing Framework, and Results

ICASSP 2022 Acoustic Echo Cancellation Challenge

Subjective Evaluation of Noise Suppression Algorithms in Crowdsourcing

Crowdsourcing approach for subjective evaluation of echo impairment

Application of Just-Noticeable Difference in Quality as Environment Suitability Test for Crowdsourcing Speech Quality Assessment Task

Deep model with built-in cross-attention alignment for acoustic echo cancellation


A dplyr backend that partitions a data frame over multiple processes

On Enthusing Students About Big Data and Social Media Visualization and Analysis Using R, RStudio, and RMarkdown

A statistical model for improved membrane protein expression using sequence-derived features

Statistical evaluation of diet-microbe associations


An autoML framework & toolkit for machine learning on graphs.

Automated Machine Learning on Graphs: A Survey

AutoGL: A Library for Automated Graph Learning

NAS-Bench-Graph: Benchmarking Graph Neural Architecture Search

Automated Graph Machine Learning: Approaches, Libraries and Directions

Adversarially Robust Neural Architecture Search for Graph Neural Networks


Ensemble of HMM methods (SEPP, TIPP, UPP)

KatharoSeq Enables High-Throughput Microbiome Analysis from Low-Biomass Samples

HIPPI: highly accurate protein family classification with ensembles of HMMs

TIPP2: metagenomic taxonomic profiling using phylogenetic markers

Ultra-large alignments using Phylogeny-aware Profiles

Air versus Water Chilling of Chicken: a Pilot Study of Quality, Shelf-Life, Microbial Ecology, and Economics

HMMerge: an ensemble method for multiple sequence alignment


Open-source library for analyzing the results produced by ABINIT

Many-body perturbation theory calculations using the yambo code

Journal of physics. Condensed matter : an Institute of Physics journal

Phonon-limited electron mobility in Si, GaAs and GaP using plane waves and Bloch states

Automation methodologies and large-scale validation for GW: Towards high-throughput GW calculations

Convergence and pitfalls of density functional perturbation theory phonons calculations from a high-throughput perspective

Assessing the quality of relaxation-time approximations with fully automated computations of phonon-limited mobilities

Berry flux diagonalization: Application to electric polarization

Second-harmonic generation tensors from high-throughput density-functional perturbation theory


A collection of Google research projects related to Federated Learning and Federated Analytics.

Advances and Open Problems in Federated Learning

Adaptive Federated Optimization

Robust Aggregation for Federated Learning

A Field Guide to Federated Optimization

The Distributed Discrete Gaussian Mechanism for Federated Learning with Secure Aggregation

Practical and Private (Deep) Learning without Sampling or Shuffling

The Skellam Mechanism for Differentially Private Federated Learning

Federated Reconstruction: Partially Local Federated Learning

How to DP-fy ML: A Practical Guide to Machine Learning with Differential Privacy

On Large-Cohort Training for Federated Learning


CoreNet: A library for training deep neural networks

OpenELM: An Efficient Language Model Family with Open Training and Inference Framework

CVNets: High Performance Library for Computer Vision

Bytes Are All You Need: Transformers Operating Directly On File Bytes

CatLIP: CLIP-level Visual Recognition Accuracy with 2.7x Faster Pre-training on Web-scale Image-Text Data


Consistency Distilled Diff VAE

Consistency Models

Autoregressive Model Beats Diffusion: Llama for Scalable Image Generation

Autoregressive Image Generation without Vector Quantization

Towards Stable and Faithful Inpainting


This repository contains the official implementation of the research paper, "An Improved One millisecond Mobile Backbone".

MobileOne: An Improved One millisecond Mobile Backbone

RepGhost: A Hardware-Efficient Ghost Module via Re-parameterization

Efficient Modulation for Vision Networks


The repository for our open online course "Research on Corporate Transparency"

The financial reporting environment: Review of the recent literature

The Economics of Disclosure and Financial Reporting Regulation: Evidence and Suggestions for Future Research

Shaping Liquidity: On the Causal Effects of Voluntary Disclosure

Disclosure Processing Costs, Investors’ Information Choice, and Equity Market Outcomes: A Review

Creating Legitimacy for Sustainability Assurance Practices: Evidence from Sustainability Restatements

Non-GAAP Earnings Disclosure in Loss Firms

The marketization of a social movement: Activists, shareholders and CSR disclosure

On the Determinants and Effects of Corporate Tax Transparency: Review of an Emerging Literature

The Pitch: Managers’ Disclosure Choice During IPO Roadshows

Public Tax Disclosures and Investor Perceptions


Keras-based implementation of Relational Graph Convolutional Networks

Graph Neural Networks: A Review of Methods and Applications

Modeling Relational Data with Graph Convolutional Networks

Deep Learning on Graphs: A Survey

Relational Graph Convolutional Networks: A Closer Look

Skip Vectors for RDF Data: Extraction Based on the Complexity of Feature Patterns

A Systematic Review of Deep Graph Neural Networks: Challenges, Classification, Architectures, Applications & Potential Utility in Bioinformatics


This code package implements the prototypical part network (ProtoPNet) from the paper "This Looks Like That: Deep Learning for Interpretable Image Recognition" (to appear at NeurIPS 2019), by Chaofan Chen* (Duke University), Oscar Li* (Duke University), Chaofan Tao (Duke University), Alina Jade Barnett (Duke University), Jonathan Su (MIT Lincoln Laboratory), and Cynthia Rudin (Duke University) (* denotes equal contribution).

Interpretable Image Classification with Differentiable Prototypes Assignment

This Looks Like That, Because ... Explaining Prototypes for Interpretable Image Recognition

Concept-level Debugging of Part-Prototype Networks

Interpretability Benchmark for Evaluating Spatial Misalignment of Prototypical Parts Explanations

Pixel-Grounded Prototypical Part Networks


Differentiable computations of the signature and logsignature transforms, on both CPU and GPU. (ICLR 2021)

A Primer on the Signature Method in Machine Learning

Deep Signature Transforms

Neural Rough Differential Equations for Long Time Series

Signatory: differentiable computations of the signature and logsignature transforms, on both CPU and GPU

Sig-SDEs model for quantitative finance

Efficient and Accurate Gradients for Neural SDEs

Neural Controlled Differential Equations for Online Prediction Tasks

Generalised Interpretable Shapelets for Irregular Time Series

Information Extraction from Swedish Medical Prescriptions with Sig-Transformer Encoder

Signature Trading: A Path-Dependent Extension of the Mean-Variance Framework with Exogenous Signals