A package for the analysis of 1d astronomical spectra, especially quasar and galaxy spectra.

Deep learning of quasar spectra to discover and characterize damped Lyα systems

HST/COS OBSERVATIONS OF IONIZED GAS ACCRETION AT THE DISK-HALO INTERFACE OF M33

Zenodo (CERN European Organization for Nuclear Research)

CGM 2 I: The Extent of the Circumgalactic Medium Traced by Neutral Hydrogen

Molecular Emission from a Galaxy Associated with a z ∼ 2.2 Damped Lyα Absorber

Revealing the Milky Way’s Hidden Circumgalactic Medium with the Cosmic Origins Spectrograph Quasar Database for Galactic Absorption Lines

MUSE Analysis of Gas around Galaxies (MAGG) – IV: The gaseous environment of z∼ 3-4 Lyman-alpha emitting galaxies

Galactic Gas Flows from Halo to Disk: Tomography and Kinematics at the Milky Way's Disk-Halo Interface

A Long Stream of Metal-poor Cool Gas around a Massive Starburst Galaxy at z = 2.67

The CGM-GRB Study. I. Uncovering the Circumgalactic Medium around GRB Hosts at Redshifts 2-6

The QuaStar Survey: Detecting Hidden Low-velocity Gas in the Milky Way's Circumgalactic Medium


FOQUS: Framework for Optimization and Quantification of Uncertainty and Surrogates


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


The web application front end for Model My Watershed.


EnsEMBL Hive - a system for creating and running pipelines on a distributed compute resource

The tuatara genome reveals ancient features of amniote evolution

Genome analysis of a major urban malaria vector mosquito, Anopheles stephensi

uap: reproducible and robust HTS data analysis

Variant calling across 505 openly consented samples from four Gambian populations on GRCh38


web-based analysis tool for rare disease genomics

A three-year follow-up study evaluating clinical utility of exome sequencing and diagnostic potential of reanalysis

Children’s rare disease cohorts: an integrative research and clinical genomics initiative

A novel variant in GATM causes idiopathic renal Fanconi syndrome and predicts progression to end-stage kidney disease

A founder mutation in the PLPBP gene in families from Saguenay-Lac-St-Jean region affected by a pyridoxine-dependent epilepsy.

Monogenic Versus Multifactorial Inheritance in the Development of Isolated Cleft Palate: A Whole Genome Sequencing Study

High Prevalence of Collagenopathies in Preterm- and Term-Born Children With Periventricular Venous Hemorrhagic Infarction


Training Generative Adversarial Networks with Limited Data

StyleNeRF: A Style-based 3D-Aware Generator for High-resolution Image Synthesis

Instance-Conditioned GAN

Plug & Play Attacks: Towards Robust and Flexible Model Inversion Attacks

FreGAN: Exploiting Frequency Components for Training GANs under Limited Data

Forensic Analysis of Synthetically Generated Western Blot Images

Polymorphic-GAN: Generating Aligned Samples across Multiple Domains with Learned Morph Maps


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


Code for "Counterfactual Off-Policy Evaluation with Gumbel-Max Structural Causal Models" (ICML 2019)

A Survey on Causal Reinforcement Learning

Counterfactually Guided Policy Transfer in Clinical Settings

Delphic Offline Reinforcement Learning under Nonidentifiable Hidden Confounding


Creative Commons Attribution Share Alike 4.0 International

FOLIO: Natural Language Reasoning with First-Order Logic

LINC: A Neurosymbolic Approach for Logical Reasoning by Combining Language Models with First-Order Logic Provers

Assessing Logical Reasoning Capabilities of Encoder-Only Transformer Models


MotionSense Dataset for Human Activity and Attribute Recognition ( time-series data generated by smartphone's sensors: accelerometer and gyroscope) (PMC Journal) (IoTDI'19)

Mobile Sensor Data Anonymization

Protecting Sensory Data against Sensitive Inferences

PROCEEDINGS OF THE WORKSHOP ON PRIVACY BY DESIGN IN DISTRIBUTED SYSTEMS (P2DS'18)

Privacy and Utility Preserving Sensor-Data Transformations

DySan: Dynamically Sanitizing Motion Sensor Data Against Sensitive Inferences through Adversarial Networks

DANA: Dimension-Adaptive Neural Architecture for Multivariate Sensor Data

Proceedings of the ACM on Interactive, Mobile, Wearable and Ubiquitous Technologies

Anonymizing Sensor Data on the Edge: A Representation Learning and Transformation Approach

A Trainable Open-Source Machine Learning Accelerometer Activity Recognition Toolbox: Deep Learning Approach

Comparing Self-Supervised Learning Techniques for Wearable Human Activity Recognition


End-to-End Neural Diarization

End-to-End Neural Speaker Diarization with Self-attention

End-to-End Neural Speaker Diarization with Permutation-Free Objectives

End-to-End Speaker Diarization for an Unknown Number of Speakers with Encoder-Decoder Based Attractors

Online End-to-End Neural Diarization with Speaker-Tracing Buffer

Neural Speaker Diarization with Speaker-Wise Chain Rule

The Hitachi-JHU DIHARD III System: Competitive End-to-End Neural Diarization and X-Vector Clustering Systems Combined by DOVER-Lap

Neural Diarization with Non-autoregressive Intermediate Attractors

Improving End-to-End Neural Diarization Using Conversational Summary Representations


Luxembourg SUMO Traffic (LuST) Scenario

Building a Large-Scale Micro-Simulation Transport Scenario Using Big Data

ISPRS International Journal of Geo-Information

Analyzing cooperative monitoring and dissemination of critical mobile events by VANETs

Improving the Generalizability and Robustness of Large-Scale Traffic Signal Control

Social-based Cooperation of Vehicles for Data Dissemination of Critical Urban Events

What am I testing and where? Comparing testing procedures based on lightweight requirements annotations

An Evolutionary Hierarchical Interval Type-2 Fuzzy Knowledge Representation System (EHIT2FKRS) for Travel Route Assignment


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?


Official Tensorflow implementation of "M-LSD: Towards Light-weight and Real-time Line Segment Detection" (AAAI 2022 Oral)

Towards Light-Weight and Real-Time Line Segment Detection

Vision-Based Automated Recognition and 3D Localization Framework for Tower Cranes Using Far-Field Cameras

A Comprehensive Review of Image Line Segment Detection and Description: Taxonomies, Comparisons, and Challenges


HRLDAS (High Resolution Land Data Assimilation System) containing the Noah-MP Land Surface Model

Thaw processes in ice-rich permafrost landscapes represented with laterally coupled tiles in a land surface model

A framework for quantifying hydrologic effects of soil structure across scales

Modeling groundwater responses to climate change in the Prairie Pothole Region

Data for: Improvements in the Land and Crop Modeling over Flooded Rice Fields by Incorporating the Shallow Paddy Water (Submitting to the Journal of Advances in Modeling Earth Systems)


The PatchCamelyon (PCam) deep learning classification benchmark.

Deep neural network models for computational histopathology: A survey

Rotation Equivariant CNNs for Digital Pathology

Local Interpretable Model-Agnostic Explanations for Classification of Lymph Node Metastases

A Benchmark of Medical Out of Distribution Detection

TIAToolbox as an end-to-end library for advanced tissue image analytics

Understanding Zero-Shot Adversarial Robustness for Large-Scale Models

Deep Learning Models for Digital Pathology

Multi-modality artificial intelligence in digital pathology

Topological Singularity Detection at Multiple Scales

Evolved Explainable Classifications for Lymph Node Metastases


[ECCV 2018] AMC: AutoML for Model Compression and Acceleration on Mobile Devices

ProxylessNAS: Direct Neural Architecture Search on Target Task and Hardware

Hardware-Centric AutoML for Mixed-Precision Quantization

Pruning Ratio Optimization with Layer-Wise Pruning Method for Accelerating Convolutional Neural Networks

IEICE Transactions on Information and Systems


DexiNed: Dense EXtreme Inception Network for Edge Detection

Dense Extreme Inception Network: Towards a Robust CNN Model for Edge Detection

Dense Extreme Inception Network for Edge Detection

Tracking Highly Similar Rat Instances under Heavy Occlusions: An Unsupervised Deep Generative Pipeline

Phase Unwrapping using a Joint CNN and SQD-LSTM Network


Crawl BookCorpus

Aligning Books and Movies: Towards Story-like Visual Explanations by Watching Movies and Reading Books

Skip-Thought Vectors

Don't Stop Pretraining: Adapt Language Models to Domains and Tasks

Understanding Contrastive Representation Learning through Alignment and Uniformity on the Hypersphere

Holistic Evaluation of Language Models

Debiased Contrastive Learning

Topical-Chat: Towards Knowledge-Grounded Open-Domain Conversations

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

Data augmentation using back-translation for context-aware neural machine translation

Empirical Methods in Natural Language Processing

Semi-supervised Formality Style Transfer using Language Model Discriminator and Mutual Information Maximization


goleft is a collection of bioinformatics tools distributed under MIT license in a single static binary

STRetch: detecting and discovering pathogenic short tandem repeat expansions

Indexcov: fast coverage quality control for whole-genome sequencing

The mutational dynamics of short tandem repeats in large, multigenerational families

The Genome of the Margined White Butterfly (Pieris macdunnoughii): Sex Chromosome Insights and the Power of Polishing with PoolSeq Data

Evidence for a single, ancient origin of a genus-wide alternative life history strategy

A Stop-Gain Mutation within MLPH Is Responsible for the Lilac Dilution Observed in Jacob Sheep


A library for Bayesian neural network layers and uncertainty estimation in Deep Learning extending the core of PyTorch

Weight Uncertainty in Neural Networks

Flipout: Efficient Pseudo-Independent Weight Perturbations on Mini-Batches

Laplace Redux - Effortless Bayesian Deep Learning

Radial Bayesian Neural Networks: Beyond Discrete Support In Large-Scale Bayesian Deep Learning

Specifying Weight Priors in Bayesian Deep Neural Networks with Empirical Bayes

Laplace Redux -- Effortless Bayesian Deep Learning

Incorporating Unlabelled Data into Bayesian Neural Networks

Do Bayesian Variational Autoencoders Know What They Don't Know?

Uncertainty-aware Surrogate Models for Airfoil Flow Simulations with Denoising Diffusion Probabilistic Models

Robust Cross-domain CT Image Reconstruction via Bayesian Noise Uncertainty Alignment


Doing simple retrieval from LLM models at various context lengths to measure accuracy

The Llama 3 Herd of Models

LongAlign: A Recipe for Long Context Alignment of Large Language Models

Make Your LLM Fully Utilize the Context

The Chronicles of RAG: The Retriever, the Chunk and the Generator

BABILong: Testing the Limits of LLMs with Long Context
  Reasoning-in-a-Haystack

NeedleBench: Can LLMs Do Retrieval and Reasoning in 1 Million Context Window?

Extending Llama-3's Context Ten-Fold Overnight

Dialectical Alignment: Resolving the Tension of 3H and Security Threats
  of LLMs

XL3M: A Training-free Framework for LLM Length Extension Based on Segment-wise Inference

Quest: Query-centric Data Synthesis Approach for Long-context Scaling of Large Language Model


A PyTorch toolbox for domain generalization, domain adaptation and semi-supervised learning.

Domain Generalization: A Survey

Domain Generalization with MixStyle

Domain Adaptive Ensemble Learning

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

Cross-Domain Adaptive Clustering for Semi-Supervised Domain Adaptation

Style Normalization and Restitution for Domain Generalization and Adaptation

Semi-Supervised Domain Generalization with Stochastic StyleMatch

MixStyle Neural Networks for Domain Generalization and Adaptation

Dynamic Instance Domain Adaptation

Robust Target Training for Multi-Source Domain Adaptation

Domain-Agnostic Mutual Prompting for Unsupervised Domain Adaptation


MIMIC-Extract:A Data Extraction, Preprocessing, and Representation Pipeline for MIMIC-III

MIMIC-Extract

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

Democratizing EHR analyses with FIDDLE: a flexible data-driven preprocessing pipeline for structured clinical data

Journal of the American Medical Informatics Association : JAMIA

Healthsheet: Development of a Transparency Artifact for Health Datasets

Benchmarking Distribution Shift in Tabular Data with TableShift

MULTIPAR: Supervised Irregular Tensor Factorization with Multi-task Learning


R package for modeling single cell UMI expression data using regularized negative binomial regression

SARS-CoV-2 Receptor ACE2 Is an Interferon-Stimulated Gene in Human Airway Epithelial Cells and Is Detected in Specific Cell Subsets across Tissues

Spatial omics: Navigating to the golden era of cancer research

Single cell full-length transcriptome of human subcutaneous adipose tissue reveals unique and heterogeneous cell populations

Cancer cell plasticity and MHC-II–mediated immune tolerance promote breast cancer metastasis to lymph nodes

Microglia maintain structural integrity during fetal brain morphogenesis

Single cell qtSEQ: Cell-indexed quantitative and targeted RNA sequencing for sorted rare lymphocyte subpopulations

Toward uncharted territory of cellular heterogeneity: advances and applications of single-cell RNA-seq

Journal of translational genetics and genomics

Dysregulated Cell–Cell Communication Characterizes Pulmonary Fibrosis

Meta-analysis of single-cell and single-nucleus transcriptomics reveals kidney cell type consensus signatures

Single Cell Transcriptomic Analysis of the Identity and Function of Fibro/Adipogenic Progenitors in Healthy and Dystrophic Muscle


Pytorch Repo for DeepGCNs (ICCV'2019 Oral, TPAMI'2021), DeeperGCN (arXiv'2020) and GNN1000(ICML'2021): https://www.deepgcns.org

Do Transformers Really Perform Bad for Graph Representation?

DeeperGCN: All You Need to Train Deeper GCNs

Vision GNN: An Image is Worth Graph of Nodes

Training Graph Neural Networks with 1000 Layers

DeepGCNs: Making GCNs Go as Deep as CNNs

IEEE transactions on pattern analysis and machine intelligence

Node Feature Extraction by Self-Supervised Multi-scale Neighborhood Prediction


Toolbox for simulation and processing of in-vivo magnetic resonance spectroscopy (MRS) data

Accelerated MR spectroscopic imaging—a review of current and emerging techniques

Linking GABA and glutamate levels to cognitive skill acquisition during development

Induced sensorimotor cortex plasticity remediates chronic treatment-resistant visual neglect

Physics-Driven Synthetic Data Learning for Biomedical Magnetic Resonance: The imaging physics-based data synthesis paradigm for artificial intelligence

Excitation and inhibition in anterior cingulate predict use of past experiences

An Ultra-High Field Magnetic Resonance Spectroscopy Study of Post Exercise Lactate, Glutamate and Glutamine Change in the Human Brain

Robust single-shot acquisition of high resolution whole brain ASL images by combining time-dependent 2D CAPIRINHA sampling with spatio-temporal TGV reconstruction

Neurochemical and cognitive changes precede structural abnormalities in the TgF344-AD rat model

Altered glutamate level and its association with working memory among patients with treatment-resistant schizophrenia (TRS): a proton magnetic resonance spectroscopy study

Glutamine + glutamate level predicts the magnitude of microstructural organization in the gray matter in the healthy elderly


GT4SD, an open-source library to accelerate hypothesis generation in the scientific discovery process.

Regression Transformer enables concurrent sequence regression and generation for molecular language modelling

A Survey of Reasoning with Foundation Models

Active Site Sequence Representations of Human Kinases Outperform Full Sequence Representations for Affinity Prediction and Inhibitor Generation: 3D Effects in a 1D Model

Journal of chemical information and modeling

Accelerating material design with the generative toolkit for scientific discovery

On the Choice of Active Site Sequences for Kinase-Ligand Affinity Prediction


Physical Optics Propagation in Python

Review of high-contrast imaging systems for current and future ground- and space-based telescopes I. Coronagraph design methods and optical performance metrics

Space Telescopes and Instrumentation 2018: Optical, Infrared, and Millimeter Wave

Kernel Phase and Coronagraphy with Automatic Differentiation

Modeling coronagraphic extreme wavefront control systems for high contrast imaging in ground and space telescope missions


A compiler and scenario generator for the Scenic scenario description language.

Scenic: a language for scenario specification and scene generation

Programming Language Design and Implementation

Scenic: a language for scenario specification and data generation

ChatScene: Knowledge-Enabled Safety-Critical Scenario Generation for Autonomous Vehicles

3D Environment Modeling for Falsification and Beyond with Scenic 3.0


Python Package for Airborne RGB machine learning


Python bindings to the Tree-sitter parsing library

StructCoder: Structure-Aware Transformer for Code Generation

Multi-target Backdoor Attacks for Code Pre-trained Models

Tackling Long Code Search with Splitting, Encoding, and Aggregating


Containerized radio interferometry scripting framework -- NB: Classic version is no longer in active development, use stimela 2! See README for details.

The MeerKAT Galaxy Cluster Legacy Survey I. Survey Overview and Highlights.

Primary beam effects of radio astronomy antennas - II. Modelling MeerKAT L-band beams

Monthly Notices of the Royal Astronomical Society

Collimated synchrotron threads linking the radio lobes of ESO 137-006

DeepSource: Point Source Detection using Deep Learning

Monthly notices of the Royal Astronomical Society

The flickering nuclear activity of Fornax A

A MeerKAT view of pre-processing in the Fornax A group

Neutral hydrogen gas within and around NGC 1316

Nature of the unusual transient AT 2018cow from HI observations of its host galaxy

HAL (Le Centre pour la Communication Scientifique Directe)

KERN

Towards the first detection of strongly lensed H I emission


Source code for end-to-end dialogue model from the MultiWOZ paper (Budzianowski et al. 2018, EMNLP)

MultiWOZ - A Large-Scale Multi-Domain Wizard-of-Oz Dataset for Task-Oriented Dialogue Modelling

MultiWOZ 2.1: A Consolidated Multi-Domain Dialogue Dataset with State Corrections and State Tracking Baselines

MultiWOZ 2.2 : A Dialogue Dataset with Additional Annotation Corrections and State Tracking Baselines

RedditBias: A Real-World Resource for Bias Evaluation and Debiasing of Conversational Language Models

Semantically Conditioned Dialog Response Generation via Hierarchical Disentangled Self-Attention

ConvLab: Multi-Domain End-to-End Dialog System Platform

DialogBERT: Discourse-Aware Response Generation via Learning to Recover and Rank Utterances

Alternating Recurrent Dialog Model with Large-scale Pre-trained Language Models

Description-Driven Task-Oriented Dialog Modeling

Transferable Dialogue Systems and User Simulators


AMReX-based structured wind solver

ExaWind: Open‐source CFD for hybrid‐RANS/LES geometry‐resolved wind turbine simulations in atmospheric flows

Ensemble flow reconstruction in the atmospheric boundary layer from spatially limited measurements through latent diffusion models

Performance comparison of CFD-DEM solver MFiX-Exa, on GPUs and CPUs


Combating hidden stratification with GEORGE

No Subclass Left Behind: Fine-Grained Robustness in Coarse-Grained Classification Problems

Domino: Discovering Systematic Errors with Cross-Modal Embeddings

The Spotlight: A General Method for Discovering Systematic Errors in Deep Learning Models

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


AnnexML: Approximate Nearest Neighbor Search for Extreme Multi-label Classification

Data scarcity, robustness and extreme multi-label classification

Correlation Networks for Extreme Multi-label Text Classification

Large-Scale Training System for 100-Million Classification at Alibaba


High-performance error correction for Illumina resequencing data

Denoising DNA deep sequencing data—high-throughput sequencing errors and their correction

BFC: correcting Illumina sequencing errors

A highly differentiated region of wheat chromosome 7AL encodes a Pm1a immune receptor that recognizes its corresponding AvrPm1a effector from Blumeria graminis

Denoising of Aligned Genomic Data

Genome assembly of primitive cultivated potato Solanum stenotomum provides insights into potato evolution

Correcting Illumina sequencing errors for human data


Finite volume solver for incompressible multiphase flows with surface tension. Foaming flows in complex geometries.

A versatile and membrane-less electrochemical reactor for the electrolysis of water and brine

A hybrid particle volume-of-fluid method for curvature estimation in multiphase flows

International Journal of Multiphase Flow

Korali: Efficient and scalable software framework for Bayesian uncertainty quantification and stochastic optimization

Computing foaming flows across scales: From breaking waves to microfluidics

Bubbles in turbulent flows: Data-driven, kinematic models with history terms

A High Performance Computing Framework for Multiphase, Turbulent Flows on Structured Grids

Proceedings of the Platform for Advanced Scientific Computing Conference

Breaking waves: To foam or not to foam?


The software called Fmask (Function of mask) is used for automated clouds, cloud shadows, and snow masking for Landsats 4-8 and Sentinel 2 images.

Comparison of Cloud Cover Detection Algorithms on Sentinel-2 Images of the Amazon Tropical Forest

Local environmental context drives heterogeneity of early succession dynamics in alpine glacier forefields

A Novel Classification Extension-Based Cloud Detection Method for Medium-Resolution Optical Images

Fusing Retrievals of High Resolution Aerosol Optical Depth from Landsat-8 and Sentinel-2 Observations over Urban Areas


ICLR 2020: Composition-Based Multi-Relational Graph Convolutional Networks

Composition-based Multi-Relational Graph Convolutional Networks

Temporal Knowledge Graph Forecasting with Neural ODE

Self-Supervised Learning of Contextual Embeddings for Link Prediction in Heterogeneous Networks

Neural Multi-Hop Reasoning With Logical Rules on Biomedical Knowledge Graphs

SMiLE: Schema-augmented Multi-level Contrastive Learning for Knowledge Graph Link Prediction

Sem@K: Is my knowledge graph embedding model semantic-aware?

Noisy Positive-Unlabeled Learning with Self-Training for Speculative Knowledge Graph Reasoning

Mitigating Relational Bias on Knowledge Graphs

Relation-aware Ensemble Learning for Knowledge Graph Embedding


Ukb: graph-based WSD and similarity

The risk of sub-optimal use of Open Source NLP Software: UKB is inadvertently state-of-the-art in knowledge-based WSD

Studying the Wikipedia Hyperlink Graph for Relatedness and Disambiguation

Comparative Probing of Lexical Semantics Theories for Cognitive Plausibility and Technological Usefulness

Extraction of common conceptual components from multiple ontologies

Whom to Learn From? Graph- vs. Text-based Word Embeddings

Recent Advances in Natural Language Processing

Word Sense Disambiguation Studio: A Flexible System for WSD Feature Extraction

Persian-WSD-Corpus: A Sense Annotated Corpus for Persian All-words Word Sense Disambiguation


Code for the Interspeech 2021 paper "AST: Audio Spectrogram Transformer".

AST: Audio Spectrogram Transformer

SSAST: Self-Supervised Audio Spectrogram Transformer

BYOL for Audio: Exploring Pre-Trained General-Purpose Audio Representations

CMKD: CNN/Transformer-Based Cross-Model Knowledge Distillation for Audio Classification

Learnable Irrelevant Modality Dropout for Multimodal Action Recognition on Modality-Specific Annotated Videos

Multiscale Audio Spectrogram Transformer for Efficient Audio Classification

Codec-SUPERB: An In-Depth Analysis of Sound Codec Models

Neural Relation Graph: A Unified Framework for Identifying Label Noise and Outlier Data

Dataset Balancing Can Hurt Model Performance

IEEE International Conference on Acoustics, Speech, and Signal Processing

MaskedKD: Efficient Distillation of Vision Transformers with Masked Images


Code to reproduce results from the paper: "Compressed Sensing using Generative Models".

Sample Complexity Bounds for 1-bit Compressive Sensing and Binary Stable Embeddings with Generative Priors

Fully Learnable Model for Task-Driven Image Compressed Sensing


A KBQA system based on DBpedia.

A Universal Question-Answering Platform for Knowledge Graphs

NAMER: A Node-Based Multitasking Framework for Multi-Hop Knowledge Base Question Answering

North American Chapter of the Association for Computational Linguistics

Few-shot Multi-hop Question Answering over Knowledge Base


This repo is DEPRECATED. Please use minimap2, the successor of minimap.

Nanopore sequencing and assembly of a human genome with ultra-long reads

Minimap and miniasm: fast mapping and de novo assembly for noisy long sequences

Nanopore sequencing technology and tools for genome assembly: computational analysis of the current state, bottlenecks and future directions

Research in Computational Molecular Biology

FMLRC: Hybrid long read error correction using an FM-index

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

Innovations and challenges in detecting long read overlaps: an evaluation of the state-of-the-art

A spectral algorithm for fast de novo layout of uncorrected long nanopore reads

GALA: a computational framework for de novo chromosome-by-chromosome assembly with long reads

Zenodo (CERN European Organization for Nuclear Research)

Accelerating Genome Sequence Analysis via Efficient Hardware/Algorithm Co-Design

Computer Architecture-Aware Optimisation of DNA Analysis Systems

Whole-genome sequencing of three local rice varieties (Oryza sativa L.) in Vietnam


[IJCAI'18] Spatio-Temporal Graph Convolutional Networks

A Comprehensive Survey on Graph Neural Networks

IEEE transactions on neural networks and learning systems

Spatio-Temporal Graph Convolutional Networks: A Deep Learning Framework for Traffic Forecasting

PROCEEDINGS OF THE TWENTY-SEVENTH INTERNATIONAL JOINT CONFERENCE ON ARTIFICIAL INTELLIGENCE

Deep Learning on Graphs: A Survey

Spectral Temporal Graph Neural Network for Multivariate Time-series Forecasting

Deep Learning on Traffic Prediction: Methods, Analysis and Future Directions

IEEE Transactions on Intelligent Transportation Systems

Dynamic Network Embedding Survey

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

Forecast network-wide traffic states for multiple steps ahead: A deep learning approach considering dynamic non-local spatial correlation and non-stationary temporal dependency

Transportation Research Part C: Emerging Technologies

Low-Rank Autoregressive Tensor Completion for Multivariate Time Series Forecasting

Deep Coupling Network For Multivariate Time Series Forecasting


SNP Pipeline is a pipeline for the production of SNP matrices from sequence data used in the phylogenetic analysis of pathogenic organisms sequenced from samples of interest to food safety.

CFSAN SNP Pipeline: an automated method for constructing SNP matrices from next-generation sequence data

NASP: an accurate, rapid method for the identification of SNPs in WGS datasets that supports flexible input and output formats.

Next generation microbiological risk assessment: opportunities of whole genome sequencing (WGS) for foodborne pathogen surveillance, source tracking and risk assessment

An evaluation of alternative methods for constructing phylogenies from whole genome sequence data: a case study with Salmonella

Whole Genome Sequence Analysis Using JSpecies Tool Establishes Clonal Relationships between Listeria monocytogenes Strains from Epidemiologically Unrelated Listeriosis Outbreaks

Temporal Dynamics of Salmonella enterica subsp. enterica Serovar Agona Isolates From a Recurrent Multistate Outbreak


A PyTorch Library for Multi-Task Learning

Modeling Task Relationships in Multi-task Learning with Multi-gate Mixture-of-Experts

Progressive Layered Extraction (PLE): A Novel Multi-Task Learning (MTL) Model for Personalized Recommendations

RECSYS 2020: 14TH ACM CONFERENCE ON RECOMMENDER SYSTEMS

Reasonable Effectiveness of Random Weighting: A Litmus Test for Multi-Task Learning

LibMTL: A Python Library for Multi-Task Learning

Dual-Balancing for Multi-Task Learning

Unleashing the Power of Multi-Task Learning: A Comprehensive Survey
  Spanning Traditional, Deep, and Pretrained Foundation Model Eras


Naive Bayes SVM for Sentiment Analysis

Skip-Thought Vectors

Effective Use of Word Order for Text Categorization with Convolutional Neural Networks

Ensemble of Generative and Discriminative Techniques for Sentiment Analysis of Movie Reviews


Conceptual Captions is a dataset containing (image-URL, caption) pairs designed for the training and evaluation of machine learned image captioning systems.

Conceptual Captions: A Cleaned, Hypernymed, Image Alt-text Dataset For Automatic Image Captioning

PROCEEDINGS OF THE 56TH ANNUAL MEETING OF THE ASSOCIATION FOR COMPUTATIONAL LINGUISTICS (ACL), VOL 1

Reading and Writing: Discriminative and Generative Modeling for Self-Supervised Text Recognition

ProtoCLIP: Prototypical Contrastive Language Image Pretraining

Self-supervised Character-to-Character Distillation for Text Recognition


3D Bounding Box Annotation Tool (3D-BAT) Point cloud and Image Labeling

3D BAT: A Semi-Automatic, Web-based 3D Annotation Toolbox for Full-Surround, Multi-Modal Data Streams

TUMTraf V2X Cooperative Perception Dataset

Deep learning – promises for 3D nuclear imaging: a guide for biologists

ActiveAnno3D -- An Active Learning Framework for Multi-Modal 3D Object
  Detection

A Survey of Robust 3D Object Detection Methods in Point Clouds


An OpenAI Gym interface to Super Mario Bros. & Super Mario Bros. 2 (Lost Levels) on The NES

Learning to Shape Rewards Using a Game of Two Partners

Deep W-Networks: Solving Multi-Objective Optimisation Problems With Deep Reinforcement Learning

RAMario: Experimental Approach to Reptile Algorithm -- Reinforcement Learning for Mario

A Survey of Imitation Learning Methods, Environments and Metrics

Zero-shot Policy Learning with Spatial Temporal Reward Decomposition on Contingency-aware Observation


A header-only C++ library for L-BFGS and L-BFGS-B algorithms

DiffCloth: Differentiable Cloth Simulation with Dry Frictional Contact

The Quantum Approximate Optimization Algorithm at High Depth for MaxCut on Large-Girth Regular Graphs and the Sherrington-Kirkpatrick Model

Correspondence-Free Material Reconstruction using Sparse Surface Constraints

Integrated Nested Laplace Approximations for Large-Scale Spatial-Temporal Bayesian Modeling

Consistent Point Orientation for Manifold Surfaces via Boundary Integration

Addressing the pooled amplification paradox with unique molecular identifiers in single-cell RNA-seq


This repository contains audio samples and supplementary materials accompanying publications by the "Speaker, Voice and Language" team at Google.

Generalized End-to-End Loss for Speaker Verification

X-TaSNet: Robust and Accurate Time-Domain Speaker Extraction Network

Dr-Vectors: Decision Residual Networks and an Improved Loss for Speaker Recognition

Attentive Temporal Pooling for Conformer-based Streaming Language Identification in Long-form Speech

Sparsely Overlapped Speech Training in the Time Domain: Joint Learning of Target Speech Separation and Personal VAD Benefits

Augmenting Transformer-Transducer Based Speaker Change Detection With Token-Level Training Loss

SpeakerStew: Scaling to Many Languages with a Triaged Multilingual Text-Dependent and Text-Independent Speaker Verification System

Highly Efficient Real-Time Streaming and Fully On-Device Speaker Diarization with Multi-Stage Clustering

Parameter-Free Attentive Scoring for Speaker Verification

DiarizationLM: Speaker Diarization Post-Processing with Large Language Models


A PyTorch implementation of SRGAN based on CVPR 2017 paper "Photo-Realistic Single Image Super-Resolution Using a Generative Adversarial Network"

Generative Adversarial Networks and Perceptual Losses for Video Super-Resolution

International Conference on Image Processing

Pyramidal Denoising Diffusion Probabilistic Models

SRGAN: Training Dataset Matters


Tool for stripping adaptors and/or merging paired reads with overlap into single reads.

CAS9 transcriptional activators for target specificity screening and paired nickases for cooperative genome engineering

Massive migration from the steppe was a source for Indo-European languages in Europe

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

Ancient human genomes suggest three ancestral populations for present-day Europeans

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

High-frequency, precise modification of the tomato genome

AdapterRemoval: easy cleaning of next-generation sequencing reads

Ultrasmall copper-based nanoparticles for reactive oxygen species scavenging and alleviation of inflammation related diseases

Environmental DNA reveals that rivers are conveyer belts of biodiversity information

The draft genomes of soft-shell turtle and green sea turtle yield insights into the development and evolution of the turtle-specific body plan


Request for comments on interchangeable bioinformatics containers

Integrating taxonomic, functional, and strain-level profiling of diverse microbial communities with bioBakery 3

The Dockstore: enabling modular, community-focused sharing of Docker-based genomics tools and workflows

AMBER: Assessment of Metagenome BinnERs

MetaPalette: A k-mer painting approach for metagenomic taxonomic profiling and quantification of novel strain variation

TAXPASTA: TAXonomic Profile Aggregation and STAndardisation


Computer vision utils for Blender (generate instance annoatation, depth and 6D pose by one line code)

Training Deep Networks with Synthetic Data: Bridging the Reality Gap by Domain Randomization

iShape: A First Step Towards Irregular Shape Instance Segmentation

Bent & Broken Bicycles: Leveraging synthetic data for damaged object re-identification

IEEE Workshop/Winter Conference on Applications of Computer Vision

CarPatch: A Synthetic Benchmark for Radiance Field Evaluation on Vehicle Components


PCIC's Daily Climate Downscaling Library

Testing bias adjustment methods for regional climate change applications under observational uncertainty and resolution mismatch

A high-resolution daily global dataset of statistically downscaled CMIP6 models for climate impact analyses


Learning Sparse Nonparametric DAGs

Causal Discovery with Reinforcement Learning

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

DAGs with No Fears: A Closer Look at Continuous Optimization for Learning Bayesian Networks

DAGMA: Learning DAGs via M-matrices and a Log-Determinant Acyclicity Characterization

DAGs with No Curl: An Efficient DAG Structure Learning Approach

On Low Rank Directed Acyclic Graphs and Causal Structure Learning

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

Structure learning in polynomial time: Greedy algorithms, Bregman information, and exponential families

Efficient Bayesian network structure learning via local Markov boundary search


Clean version of opm-data without reference results

Accelerating Physics-Based Simulations Using End-to-End Neural Network Proxies: An Application in Oil Reservoir Modeling

Efficient reordered nonlinear Gauss–Seidel solvers with higher order for black-oil models

Machine learning-based multiscale constitutive modelling: Development and application to dual-porosity mass transfer

Actor-critic reinforcement learning leads decision-making in energy systems optimization—steam injection optimization

Parallel Automatic History Matching Algorithm Using Reinforcement Learning

On the impact of heterogeneity-aware mesh partitioning and non-contributing computation removal on parallel reservoir simulations


Line Modeling Engine

Water in star-forming regions (WISH): Physics and chemistry from clouds to disks as probed by Herschel spectroscopy

HAL (Le Centre pour la Communication Scientifique Directe)

Constraining Gas-phase Carbon, Oxygen, and Nitrogen in the IM Lup Protoplanetary Disk

The First Detection of 13C17O in a Protoplanetary Disk: A Robust Tracer of Disk Gas Mass

HOW DENSE IS YOUR GAS? ON THE RECOVERABILITY OF LVG MODEL PARAMETERS

Challenges and Techniques for Simulating Line Emission

magritte, a modern software library for 3D radiative transfer: I. Non-LTE atomic and molecular line modelling

Monthly Notices of the Royal Astronomical Society

Gravitational instabilities in a protosolar-like disc – II. Continuum emission and mass estimates

Arp 220: New Observational Insights into the Structure and Kinematics of the Nuclear Molecular Disks and Surrounding Gas

A SUBLIME 3D Model for Cometary Coma Emission: The Hypervolatile-rich Comet C/2016 R2 (PanSTARRS)

Synthetic line and continuum observations of simulated turbulent clouds: the apparent widths of filaments


KakaoBrain KoGPT (Korean Generative Pre-trained Transformer)

RoFormer: Enhanced Transformer with Rotary Position Embedding

What Changes Can Large-scale Language Models Bring? Intensive Study on HyperCLOVA: Billions-scale Korean Generative Pretrained Transformers

Membership Inference Attacks With Token-Level Deduplication on Korean Language Models

Transformer-based Korean Pretrained Language Models: A Survey on Three Years of Progress

Orion-14B: Open-source Multilingual Large Language Models


pySCENIC is a lightning-fast python implementation of the SCENIC pipeline (Single-Cell rEgulatory Network Inference and Clustering) which enables biologists to infer transcription factors, gene regulatory networks and cell types from single-cell RNA-seq data.

Single-cell transcriptomics identifies divergent developmental lineage trajectories during human pituitary development

Single-cell profiling of transcriptome and histone modifications with EpiDamID

The single-cell and spatial transcriptional landscape of human gastrulation and early brain development

Single cell characterization of B-lymphoid differentiation and leukemic cell states during chemotherapy in ETV6-RUNX1-positive pediatric leukemia identifies drug-targetable transcription factor activities

Single-cell sequencing identifies differentiation-related markers for molecular classification and recurrence prediction of PitNET

A TCF4/BRD4-dependent regulatory network confers cross-resistance to targeted and immune checkpoint therapy in melanoma

NADase CD38 is a key determinant of ovarian aging

Dedifferentiated Schwann cell-derived TGF-β3 is essential for the neural system to promote wound healing

Deciphering the Molecular Characteristics of Human Idiopathic Nonobstructive Azoospermia from the Perspective of Germ Cells

scPlant: A versatile framework for single-cell transcriptomic data analysis in plants


Library of basic circuits for circom

SANS: Self-sovereign Authentication for Network Slices

Bringing data minimization to digital wallets at scale with general-purpose zero-knowledge proofs

FORT: Right-Proving and Attribute-Blinding Self-Sovereign Authentication

SoK: What don't we know? Understanding Security Vulnerabilities in
  SNARKs

zkTax: A pragmatic way to support zero-knowledge tax disclosures

A Survey on the Applications of Zero-Knowledge Proofs


View model summaries in PyTorch!

Resolution learning in deep convolutional networks using scale-space theory

Packed-Ensembles for Efficient Uncertainty Estimation

Exploring Vanilla U-Net for Lesion Segmentation from Whole-body FDG-PET/CT Scans

Deep Learning based Data Prefetching in CPU-GPU Unified Virtual Memory

Rail Detection: An Efficient Row-based Network and A New Benchmark

Fast FullSubNet: Accelerate Full-band and Sub-band Fusion Model for Single-channel Speech Enhancement

An Intelligent Framework for Oversubscription Management in CPU-GPU Unified Memory

DecisioNet: A Binary-Tree Structured Neural Network

Dynamic nsNet2: Efficient Deep Noise Suppression with Early Exiting


Open source version of the original ISET, a complement to ISETBIO

Neural Network Generalization: The Impact of Camera Parameters

A system for generating complex physically accurate sensor images for automotive applications

A convolutional neural network reaches optimal sensitivity for detecting some, but not all, patterns

Software-Defined Imaging: A Survey

Simulations of fluorescence imaging in the oral cavity

Accurate smartphone camera simulation using 3D scenes

Using simulation to quantify the performance of automotive perception systems

Image-quality metric system for color filter array evaluation


Large, modern dataset for speech recognition

GigaSpeech: An Evolving, Multi-domain ASR Corpus with 10,000 Hours of Transcribed Audio

VATLM: Visual-Audio-Text Pre-Training with Unified Masked Prediction for Speech Representation Learning

GigaST: A 10,000-hour Pseudo Speech Translation Corpus

Complex Mapping between Neural Response Frequency and Linguistic Units in Natural Speech

A Full-duplex Speech Dialogue Scheme Based On Large Language Models


Bayesian active learning library for research and industrial usecases.

DropConnect Is Effective in Modeling Uncertainty of Bayesian Deep Networks

Active learning with MaskAL reduces annotation effort for training Mask R-CNN on a broccoli dataset with visually similar classes

Computers and Electronics in Agriculture

Bayesian active learning for production, a systematic study and a reusable library

Can Active Learning Preemptively Mitigate Fairness Issues?

Synbols: Probing Learning Algorithms with Synthetic Datasets

Stochastic Batch Acquisition: A Simple Baseline for Deep Active Learning

Navya3DSeg - Navya 3D Semantic Segmentation Dataset Design & Split Generation for Autonomous Vehicles

Advancing Deep Active Learning & Data Subset Selection: Unifying Principles with Information-Theory Intuitions

LiDAR dataset distillation within bayesian active learning framework: Understanding the effect of data augmentation

Azimuth: Systematic Error Analysis for Text Classification


A simple and flexible code for Reservoir Computing architectures like Echo State Networks

ReservoirPy: An Efficient and User-Friendly Library to Design Echo State Networks

PyRCN: A toolbox for exploration and application of Reservoir Computing Networks

Which Hype for My New Task? Hints and Random Search for Echo State Networks Hyperparameters


Research and Production Oriented Speaker Verification, Recognition and Diarization Toolkit

Wespeaker: A Research and Production Oriented Speaker Embedding Learning Toolkit

High Fidelity Speech Enhancement with Band-split RNN

The SJTU X-LANCE Lab System for CNSRC 2022

Golden Gemini is All You Need: Finding the Sweet Spots for Speaker Verification

SJTU-AISPEECH System for VoxCeleb Speaker Recognition Challenge 2022

LMD: A Learnable Mask Network to Detect Adversarial Examples for Speaker Verification

What Do Self-Supervised Speech and Speaker Models Learn? New Findings
  From a Cross Model Layer-Wise Analysis

Autoregressive Diffusion Transformer for Text-to-Speech Synthesis

PP-MeT: a Real-world Personalized Prompt based Meeting Transcription System

A Benchmark for Multi-speaker Anonymization


End-to-end SFM framework based on GTSAM

SuperPoint: Self-Supervised Interest Point Detection and Description

SuperGlue: Learning Feature Matching with Graph Neural Networks

Shonan Rotation Averaging: Global Optimality by Surfing SO(p)^n

Distributed Global Structure-from-Motion with a Deep Front-End


Genome annotation with AUGUSTUS

BRAKER2: automatic eukaryotic genome annotation with GeneMark-EP+ and AUGUSTUS supported by a protein database

Genome evolution and diversity of wild and cultivated potatoes

Impacts of allopolyploidization and structural variation on intraspecific diversification in Brassica rapa

De novo phased assembly of the Vitis riparia grape genome

Hedgehog signaling controls segmentation dynamics and diversity via msx1 in a spider embryo

Genomic and Metabolomic Analyses of the Medicinal Fungus Inonotus hispidus for Its Metabolite’s Biosynthesis and Medicinal Application

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

Cepharanthine analogs mining and genomes of Stephania accelerate anti-coronavirus drug discovery

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

The First Whole Genome Sequencing of Agaricus bitorquis and Its Metabolite Profiling


Use MCMC to analyze districting plans and gerrymanders

Locating the representational baseline: Republicans in Massachusetts

Discrete geometry for electoral geography

Computational Redistricting and the Voting Rights Act

Election Law Journal: Rules, Politics, and Policy

Geometry of Graph Partitions via Optimal Transport

Implementing partisan symmetry: Problems and paradoxes

Mathematics of Nested Districts: The Case of Alaska

The (homological) persistence of gerrymandering

Spanning tree methods for sampling graph partitions

You Can Have Your Cake and Redistrict It Too

Three Applications of Entropy to Gerrymandering


NASLib is a Neural Architecture Search (NAS) library for facilitating NAS research for the community by providing interfaces to several state-of-the-art NAS search spaces and optimizers.

Bridging the Gap between Sample-based and One-shot Neural Architecture Search with BONAS

How Powerful are Performance Predictors in Neural Architecture Search?

NAS-Bench-Suite: NAS Evaluation is (Now) Surprisingly Easy

NAS-Bench-Suite-Zero: Accelerating Research on Zero Cost Proxies

NASLib: A Modular and Flexible Neural Architecture Search Library

Efficient Automation of Neural Network Design: A Survey on Differentiable Neural Architecture Search

Multifidelity Reinforcement Learning with Control Variates

Improving the Performance of DNN-based Software Services using Automated Layer Caching

Shortest Edit Path Crossover: A Theory-driven Solution to the Permutation Problem in Evolutionary Neural Architecture Search


Clean PyTorch implementations of imitation and reward learning algorithms

SOCIALGYM: A Framework for Benchmarking Social Robot Navigation

imitation: Clean Imitation Learning Implementations

On The Fragility of Learned Reward Functions

CEIL: Generalized Contextual Imitation Learning

DERAIL: Diagnostic Environments for Reward And Imitation Learning

Inferring Versatile Behavior from Demonstrations by Matching Geometric Descriptors

Deconfounding Imitation Learning with Variational Inference

General Characterization of Agents by States they Visit

Transferable Reward Learning by Dynamics-Agnostic Discriminator Ensemble

Learning to Stabilize High-dimensional Unknown Systems Using Lyapunov-guided Exploration


Repository for Digital Earth Africa Sandbox, including: Jupyter notebooks, scripts, tools and workflows for geospatial analysis with Open Data Cube and xarray

Co-Production of a 10-m Cropland Extent Map for Continental Africa using Sentinel-2, Cloud Computing, and the Open-Data-Cube


Framework for evaluating ANNS algorithms on billion scale datasets.

Results of the NeurIPS'21 Challenge on Billion-Scale Approximate Nearest Neighbor Search

BANG: Billion-Scale Approximate Nearest Neighbor Search using a Single GPU


Reference implementation for DPO (Direct Preference Optimization)

Direct Preference Optimization: Your Language Model is Secretly a Reward Model

A General Theoretical Paradigm to Understand Learning from Human Preferences

Beyond Reverse KL: Generalizing Direct Preference Optimization with Diverse Divergence Constraints

Scaling Laws for Reward Model Overoptimization in Direct Alignment
  Algorithms

Can AI Assistants Know What They Don't Know?


A code generation dataset for generating the code that implements Hearthstone and Magic The Gathering card effects.

Latent Predictor Networks for Code Generation

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

Deep Learning Based Code Generation Methods: A Literature Review


Source code and datasets of "CANE: Context-Aware Network  Embedding for Relation Modeling"

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

Improving Textual Network Embedding with Global Attention via Optimal Transport

Improved Semantic-Aware Network Embedding with Fine-Grained Word Alignment

Embedding Biomedical Ontologies by Jointly Encoding Network Structure and Textual Node Descriptors

A Deep Neural Information Fusion Architecture for Textual Network Embeddings


GraphRNN: Generating Realistic Graphs with Deep Auto-regressive Models

Deep Learning on Graphs: A Survey

GraphVAE: Towards Generation of Small Graphs Using Variational Autoencoders

E(n) Equivariant Graph Neural Networks

Scalable Deep Generative Modeling for Sparse Graphs

Fast and Robust Comparison of Probability Measures in Heterogeneous Spaces

Graph Generation with Variational Recurrent Neural Network

Handling Missing Data via Max-Entropy Regularized Graph Autoencoder

Partition and Code: learning how to compress graphs

An Unpooling Layer for Graph Generation


Pre-trained models, data, code & materials from the paper "ImageNet-trained CNNs are biased towards texture; increasing shape bias improves accuracy and robustness" (ICLR 2019 Oral)

Generalisation in humans and deep neural networks

Measuring Robustness to Natural Distribution Shifts in Image Classification

Improving robustness against common corruptions by covariate shift adaptation

The Origins and Prevalence of Texture Bias in Convolutional Neural Networks

A simple way to make neural networks robust against diverse image corruptions

Discrete Representations Strengthen Vision Transformer Robustness

Deep learning models fail to capture the configural nature of human shape perception

Making Sense of CNNs: Interpreting Deep Representations & Their Invariances with INNs

Multimodal neural networks better explain multivoxel patterns in the hippocampus


An official reimplementation of the method described in the INTERSPEECH 2021 paper - Speech Resynthesis from Discrete Disentangled Self-Supervised Representations.

DDDM-VC: Decoupled Denoising Diffusion Models with Disentangled Representation and Prior Mixup for Verified Robust Voice Conversion

SpiRit-LM: Interleaved Spoken and Written Language Model

High-Quality Automatic Voice Over with Accurate Alignment: Supervision through Self-Supervised Discrete Speech Units

Unit-based Speech-to-Speech Translation Without Parallel Data

RobustL2S: Speaker-Specific Lip-to-Speech Synthesis exploiting Self-Supervised Representations


RNA-Seq normalization and quantification pipeline

The Nephila clavipes genome highlights the diversity of spider silk genes and their complex expression

Loss of Nuclear TDP-43 Is Associated with Decondensation of LINE Retrotransposons

Circadian control of lung inflammation in influenza infection

Neuropilin-1 is a T cell memory checkpoint limiting long-term antitumor immunity

G1/S cell cycle regulators mediate effects of circadian dysregulation on tumor growth and provide targets for timed anticancer treatment

Nr4a1 suppresses cocaine-induced behavior via epigenetic regulation of homeostatic target genes

Autoreactive CD8+ T cells are restrained by an exhaustion-like program that is maintained by LAG3

Investigation of the functional role of human Interleukin-8 gene haplotypes by CRISPR/Cas9 mediated genome editing

Spliceosome factors target timeless (tim) mRNA to control clock protein accumulation and circadian behavior in Drosophila

Targeting MRTF/SRF in CAP2-dependent dilated cardiomyopathy delays disease onset


Python re-implementation of the (constrained) spectral clustering algorithms used in Google's speaker diarization papers.

Speaker Diarization with LSTM

Turn-to-Diarize: Online Speaker Diarization Constrained by Transformer Transducer Speaker Turn Detection

Highly Efficient Real-Time Streaming and Fully On-Device Speaker Diarization with Multi-Stage Clustering

Multimodal Clustering with Role Induced Constraints for Speaker Diarization


Fast exact nearest neighbor search in Hamming distance on binary codes with Multi-index hashing

Fast Exact Search in Hamming Space with Multi-Index Hashing

Improved Search in Hamming Space using Deep Multi-Index Hashing

Unsupervised Multi-Index Semantic Hashing

Deep Multi-Index Hashing for Person Re-Identification


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


adapter trimmer for Oxford Nanopore reads

Circulating SARS-CoV-2 spike N439K variants maintain fitness while evading antibody-mediated immunity

SARS-CoV-2 is transmitted via contact and via the air between ferrets

Mobile antibiotic resistome in wastewater treatment plants revealed by Nanopore metagenomic sequencing

High-accuracy long-read amplicon sequences using unique molecular identifiers with Nanopore or PacBio sequencing

Somatic mutations and cell identity linked by Genotyping of Transcriptomes

Connecting structure to function with the recovery of over 1000 high-quality metagenome-assembled genomes from activated sludge using long-read sequencing

The gut microbiota prime systemic antiviral immunity via the cGAS-STING-IFN-I axis.

Cartography of opportunistic pathogens and antibiotic resistance genes in a tertiary hospital environment

T-cell dysfunction in the glioblastoma microenvironment is mediated by myeloid cells releasing interleukin-10

mlplasmids: a user-friendly tool to predict plasmid- and chromosome-derived sequences for single species


GaLore: Memory-Efficient LLM Training by Gradient Low-Rank Projection

VeLoRA: Memory Efficient Training using Rank-1 Sub-Token Projections


State Representation Learning (SRL) zoo with PyTorch - Part of S-RL Toolbox

Time-Contrastive Networks: Self-Supervised Learning from Video

State Representation Learning for Control: An Overview

Neural networks : the official journal of the International Neural Network Society

DisCoRL: Continual Reinforcement Learning via Policy Distillation

Decoupling feature extraction from policy learning: assessing benefits of state representation learning in goal based robotics

S-RL Toolbox: Environments, Datasets and Evaluation Metrics for State Representation Learning

Continual Learning: Tackling Catastrophic Forgetting in Deep Neural Networks with Replay Processes


FreeVC: Towards High-Quality Text-Free One-Shot Voice Conversion

WavLM: Large-Scale Self-Supervised Pre-Training for Full Stack Speech Processing

Voice Conversion With Just Nearest Neighbors

Phoneme Hallucinator: One-shot Voice Conversion via Set Expansion


Deep Learning for 3D Point Clouds: A Survey

Fast-SCNN: Fast Semantic Segmentation Network

Deep Projective 3D Semantic Segmentation

SalsaNet: Fast Road and Vehicle Segmentation in LiDAR Point Clouds for Autonomous Driving

SalsaNext: Fast, Uncertainty-aware Semantic Segmentation of LiDAR Point Clouds for Autonomous Driving

Rethinking Range View Representation for LiDAR Segmentation

Robo3D: Towards Robust and Reliable 3D Perception against Corruptions

Benchmarking the Robustness of LiDAR Semantic Segmentation Models

FRNet: Frustum-Range Networks for Scalable LiDAR Segmentation

COARSE3D: Class-Prototypes for Contrastive Learning in Weakly-Supervised 3D Point Cloud Segmentation


Multiple Automatically Generated Templates brain segmentation algorithm

Warping an atlas derived from serial histology to 5 high-resolution MRIs

Linking persistent negative symptoms to amygdala–hippocampus structure in first-episode psychosis

Manual-Protocol Inspired Technique for Improving Automated MR Image Segmentation during Label Fusion

Examining litter specific variability in mice and its impact on neurodevelopmental studies

Habenular Involvement in Response to Subcallosal Cingulate Deep Brain Stimulation for Depression

Deformation-based shape analysis of the hippocampus in the semantic variant of primary progressive aphasia and Alzheimer’s disease

XKR4 Gene Effects on Cerebellar Development Are Not Specific to ADHD

Variation in subcortical anatomy: relating interspecies differences, heritability, and brain-behavior relationships


Large Language Models Are Zero-Shot Time Series Forecasters

A decoder-only foundation model for time-series forecasting

Unified Training of Universal Time Series Forecasting Transformers

Chronos: Learning the Language of Time Series

Large Language Models(LLMs) on Tabular Data: Prediction, Generation, and
  Understanding -- A Survey

Empowering Time Series Analysis with Large Language Models: A Survey

Language Models Still Struggle to Zero-shot Reason about Time Series


Bloom-filter based minimal perfect hash function library

Fast and scalable minimal perfect hashing for massive key sets

RecSplit: Minimal Perfect Hashing via Recursive Splitting

A resource-frugal probabilistic dictionary and applications in bioinformatics

PTHash: Revisiting FCH Minimal Perfect Hashing

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

Parallel and External-Memory Construction of Minimal Perfect Hash Functions With PTHash

Minimal perfect hash functions in large scale bioinformatics Problem


Generate bootstrapped confidence intervals for A/B testing in Python.

Deep Reinforcement Learning that Matters

GEP-PG: Decoupling Exploration and Exploitation in Deep Reinforcement Learning Algorithms

How Many Random Seeds? Statistical Power Analysis in Deep Reinforcement Learning Experiments

A Hitchhiker's Guide to Statistical Comparisons of Reinforcement Learning Algorithms

Constrained Bayesian Optimization with Max-Value Entropy Search

Predicting acute kidney injury at hospital re-entry using high-dimensional electronic health record data


MSCCL++: A GPU-driven communication stack for scalable AI applications

Splitwise: Efficient generative LLM inference using phase splitting

FLUX: Fast Software-based Communication Overlap On GPUs Through Kernel
  Fusion

GPU-initiated Fine-grained Overlap of Collective Communication with Computation


Video codec based point cloud compression (V-PCC) test model

Multiscale Point Cloud Geometry Compression

BASICS: Broad Quality Assessment of Static Point Clouds in a Compression Scenario

FRAS: Federated Reinforcement Learning empowered Adaptive Point Cloud Video Streaming

XR Carousel: A Visualization Tool For Volumetric Video

MMSYS '21: PROCEEDINGS OF THE 2021 MULTIMEDIA SYSTEMS CONFERENCE

A QoE Model in Point Cloud Video Streaming

BASICS: Broad quality Assessment of Static point clouds In Compression Scenarios

Point Cloud Geometry Compression Based on Multi-Layer Residual Structure

Hierarchical Prior-based Super Resolution for Point Cloud Geometry
  Compression

QV4: QoE-based Viewpoint-Aware V-PCC-encoded Volumetric Video Streaming

Proceedings of the ACM Multimedia Systems Conference 2024 on ZZZ

gpcgc: a green point cloud geometry coding method


ASER (Activities, States, Events, and their Relations): a large-scale weighted eventuality knowledge graph.

ASER: A Large-scale Eventuality Knowledge Graph

ASER: Towards Large-scale Commonsense Knowledge Acquisition via Higher-order Selectional Preference over Eventualities

A Comprehensive Survey on Automatic Knowledge Graph Construction

CoCoLM: Complex Commonsense Enhanced Language Model with Discourse Relations


Resistance Gene Identifier (RGI). Software to predict resistomes from protein or nucleotide data, including metagenomics data, based on homology and SNP models.

CARD 2020: antibiotic resistome surveillance with the comprehensive antibiotic resistance database

CARD 2023: expanded curation, support for machine learning, and resistome prediction at the Comprehensive Antibiotic Resistance Database

Capturing the Resistome: a Targeted Capture Method To Reveal Antibiotic Resistance Determinants in Metagenomes

Metagenomic Insight into Microbiome and Antibiotic Resistance Genes of High Clinical Concern in Urban and Rural Hospital Wastewater of Northern India Origin: a Major Reservoir of Antimicrobial Resistance

Antimicrobial Resistance Genes in Bacteria Isolated From Japanese Honey, and Their Potential for Conferring Macrolide and Lincosamide Resistance in the American Foulbrood Pathogen Paenibacillus larvae

Identification and quantitation of clinically relevant microbes in patient samples: Comparison of three k-mer based classifiers for speed, accuracy, and sensitivity

Flavobacterium flabelliforme sp. nov. and Flavobacterium geliluteum sp. nov., Two Multidrug-Resistant Psychrotrophic Species Isolated From Antarctica

Variation of Metagenome From Feedstock to Digestate in Full-Scale Biogas Plants

Whole-genome sequence analysis of high-level penicillin-resistant strains and antimicrobial susceptibility of Neisseria gonorrhoeae clinical isolates from Thailand

Rumen and Fecal Microbiota Characteristics of Qinchuan Cattle with Divergent Residual Feed Intake


Next-generation radio interferometric imaging.

Sparse Image Reconstruction for the SPIDER Optical Interferometric Telescope

PHOTOPTICS: PROCEEDINGS OF THE 9TH INTERNATIONAL CONFERENCE ON PHOTONICS, OPTICS AND LASER TECHNOLOGY

Distributed and parallel sparse convex optimization for radio interferometry with PURIFY

w-Stacking w-projection hybrid algorithm for wide-field interferometric imaging: implementation details and improvements

Publications of the Astronomical Society of Australia

Scalable Bayesian uncertainty quantification with data-driven priors for radio interferometric imaging

Load balancing for distributed interferometric image reconstruction


A community-contributed tool box for managing, analyzing, and visualizing WRF Hydro (and NWM) input and output files in R.


Tools for working with genomic and high throughput sequencing data.

Clinical impact of panel-based error-corrected next generation sequencing versus flow cytometry to detect measurable residual disease (MRD) in acute myeloid leukemia (AML)

Mismatch repair deficiency is not sufficient to elicit tumor immunogenicity

Targeted genome fragmentation with CRISPR/Cas9 enables fast and efficient enrichment of small genomic regions and ultra-accurate sequencing with low DNA input (CRISPR-DS)

Circulating Cell-Free DNA Profiling Predicts the Therapeutic Outcome in Advanced Hepatocellular Carcinoma Patients Treated with Combination Immunotherapy

Phylogenomics reveals multiple introductions and early spread of SARS-CoV-2 into Peru

CLIP and Massively Parallel Functional Analysis of CELF6 Reveal a Role in Destabilizing Synaptic Gene mRNAs through Interaction with 3′ UTR Elements

Footprints of natural selection at the mannose-6-phosphate isomerase locus in barnacles

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

Rapid and highly-specific generation of targeted DNA sequencing libraries enabled by linking capture probes with universal primers

Performance evaluation of commercial library construction kits for PCR-based targeted sequencing using a unique molecular identifier

Deep oncopanel sequencing reveals within block position-dependent quality degradation in FFPE processed samples


Cylon is a fast, scalable, distributed memory, parallel runtime with a Pandas like DataFrame.

High Performance Data Engineering Everywhere

Data Engineering for HPC with Python

High Performance Dataframes from Parallel Processing Patterns

In-depth Analysis On Parallel Processing Patterns for High-Performance Dataframes

Hybrid Cloud and HPC Approach to High-Performance Dataframes


A library for doing homomorphic encryption operations on tensors

TenSEAL: A Library for Encrypted Tensor Operations Using Homomorphic Encryption

A Decentralized Identity-Based Blockchain Solution for Privacy-Preserving Licensing of Individual-Controlled Data to Prevent Unauthorized Secondary Data Usage

Syft 0.5: A Platform for Universally Deployable Structured Transparency

Privacy-Preserving Credit Card Fraud Detection using Homomorphic Encryption

XFL: A High Performace, Lightweighted Federated Learning Framework

Towards Privacy-Preserving, Real-Time and Lossless Feature Matching

Toward Lossless Homomorphic Encryption for Scientific Computation

Privacy-Preserving Chaotic Extreme Learning Machine with Fully Homomorphic Encryption

MPC-Mimicking Neural Network Based on Homomorphic Encryption

Zenodo (CERN European Organization for Nuclear Research)


Medical imaging toolkit for deep learning

TorchIO: A Python library for efficient loading, preprocessing, augmentation and patch-based sampling of medical images in deep learning

Computer methods and programs in biomedicine

SAM: Self-Supervised Learning of Pixel-Wise Anatomical Embeddings in Radiological Images

Generative Adversarial Networks for Image Augmentation in Agriculture: A Systematic Review

Cooperative Training and Latent Space Data Augmentation for Robust Medical Image Segmentation

DeepAD: A Robust Deep Learning Model of Alzheimer's Disease Progression for Real-World Clinical Applications

Weakly Supervised Learning Significantly Reduces the Number of Labels Required for Intracranial Hemorrhage Detection on Head CT

Anatomy-Aware Lymph Node Detection in Chest CT using Implicit Station Stratification


PINT is not TEMPO3 -- Software for high-precision pulsar timing

Relativistic Shapiro delay measurements of an extremely massive millisecond pulsar

A NICER View of PSR J0030+0451: Millisecond Pulsar Parameter Estimation

A NICER View of the Massive Pulsar PSR J0740+6620 Informed by Radio Timing and XMM-Newton Spectroscopy

A repeating fast radio burst

Stingray: A Modern Python Library for Spectral Timing

The NANOGrav 15 yr Data Set: Observations and Timing of 68 Millisecond Pulsars

Constraining the Neutron Star Mass-Radius Relation and Dense Matter Equation of State with NICER. I. The Millisecond Pulsar X-Ray Data Set

The NANOGrav 12.5 yr Data Set: Observations and Narrowband Timing of 47 Millisecond Pulsars

The Astrophysical Journal Supplement Series

PINT: A Modern Software Package for Pulsar Timing

Gammapy - A prototype for the CTA science tools


Official AFNI source and documentation

fMRIPrep: a robust preprocessing pipeline for functional MRI

CoSMoMVPA: Multi-Modal Multivariate Pattern Analysis of Neuroimaging Data in Matlab/GNU Octave

A comprehensive macaque fMRI pipeline and hierarchical atlas

A validation framework for neuroimaging software: The case of population receptive fields

Global change in brain state during spontaneous and forced walk in Drosophila is composed of combined activity patterns of different neuron classes

Monash DaCRA fPET-fMRI: A dataset for comparison of radiotracer administration for high temporal resolution functional FDG-PET

Stability of Spatial Smoothness and Cluster-Size Threshold Estimates in FMRI using AFNI


An IBC relayer for ibc-go

The Interblockchain Communication Protocol: An Overview

TrustBoost: Boosting Trust among Interoperable Blockchains

Interchain Timestamping for Mesh Security


A documentation generator for Julia.

Adaptive numerical simulations with Trixi.jl: A case study of Julia for scientific computing

An Understandable, Extensible, and Reusable Implementation of the Hodgkin-Huxley Equations Using Modelica

OutlierDetection.jl: A modular outlier detection ecosystem for the Julia programming language


assemblies, annotations, further analysis on sequenced strains from the EHEC outbreak

Alignment-Free Design of Highly Discriminatory Diagnostic Primer Sets for Escherichia coli O104:H4 Outbreak Strains

Comparative Genomic Analysis of Two Novel Sporadic Shiga Toxin-Producing Escherichia coli O104:H4 Strains Isolated 2011 in Germany

Adaptive Mutations and Replacements of Virulence Traits in the Escherichia coli O104:H4 Outbreak Population


Collection of censorship blockpages as collected by various sources

ICLab: A Global, Longitudinal Internet Censorship Measurement Platform

Measuring and mitigating AS-level adversaries against Tor

Towards an Autonomous System Monitor for Mitigating Correlation Attacks in the Tor Network


A PyTorch implementation of "Cluster-GCN: An Efficient Algorithm for Training Deep and Large Graph Convolutional Networks" (KDD 2019).

A Comprehensive Survey on Graph Neural Networks

IEEE transactions on neural networks and learning systems

Node Dependent Local Smoothing for Scalable Graph Learning

Approximate Graph Propagation

Graph Ladling: Shockingly Simple Parallel GNN Training without Intermediate Communication

All Against Some: Efficient Integration of Large Language Models for Message Passing in Graph Neural Networks


Agricultural datasets


Geometric Augmentation for Text Image

Decoupled Attention Network for Text Recognition

Learn to Augment: Joint Data Augmentation and Network Optimization for Text Recognition

SLOGAN: Handwriting Style Synthesis for Arbitrary-Length and Out-of-Vocabulary Text

Conditional Text Image Generation with Diffusion Models

CNN-BiLSTM model for English Handwriting Recognition: Comprehensive Evaluation on the IAM Dataset


Implementation of various self-attention mechanisms focused on computer vision. Ongoing repository.

Attention Is All You Need

An Image is Worth 16x16 Words: Transformers for Image Recognition at Scale

TransUNet: Transformers Make Strong Encoders for Medical Image Segmentation

Self-Attention with Relative Position Representations

Is Space-Time Attention All You Need for Video Understanding?

UNETR: Transformers for 3D Medical Image Segmentation

Stand-Alone Self-Attention in Vision Models

Bottleneck Transformers for Visual Recognition

Axial-DeepLab: Stand-Alone Axial-Attention for Panoptic Segmentation

MSA Transformer


MDNet PyTorch implementation

Learning Multi-Domain Convolutional Neural Networks for Visual Tracking

Describe and Attend to Track: Learning Natural Language guided Structural Representation and Visual Attention for Object Tracking

Beyond Greedy Search: Tracking by Multi-Agent Reinforcement Learning-based Beam Search

Benchmarking Deep Trackers on Aerial Videos


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

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

Music ControlNet: Multiple Time-Varying Controls for Music Generation

Restoring degraded speech via a modified diffusion model

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

Mel Spectrogram Inversion with Stable Pitch

Score-based Source Separation with Applications to Digital Communication Signals


A dataset containing human-human knowledge-grounded open-domain conversations.

Topical-Chat: Towards Knowledge-Grounded Open-Domain Conversations

Zero-Resource Knowledge-Grounded Dialogue Generation

Policy-Driven Neural Response Generation for Knowledge-Grounded Dialogue Systems

Policy-Driven Neural Response Generation for Knowledge-Grounded Dialog Systems

Proceedings of the 13th International Conference on Natural Language Generation

Are Neural Open-Domain Dialog Systems Robust to Speech Recognition Errors in the Dialog History? An Empirical Study

CoCoA-MT: A Dataset and Benchmark for Contrastive Controlled MT with Application to Formality

Position Matters! Empirical Study of Order Effect in Knowledge-grounded Dialogue

HD-Eval: Aligning Large Language Model Evaluators Through Hierarchical
  Criteria Decomposition


Domino: Discovering Systematic Errors with Cross-Modal Embeddings

The Spotlight: A General Method for Discovering Systematic Errors in Deep Learning Models

Adaptive Testing of Computer Vision Models

Where Does My Model Underperform? A Human Evaluation of Slice Discovery Algorithms

Towards a More Rigorous Science of Blindspot Discovery in Image Classification Models


Over9000 optimizer

Descending through a Crowded Valley - Benchmarking Deep Learning Optimizers

Quantifying the advantage of domain-specific pre-training on named entity recognition tasks in materials science

Long–Short Ensemble Network for Bipolar Manic-Euthymic State Recognition Based on Wrist-Worn Sensors

Urban Sound Classification : striving towards a fair comparison


Discrete Global Grids for R: Spatial Analysis Done Right

People have shaped most of terrestrial nature for at least 12,000 years

Perceived global increase in algal blooms is attributable to intensified monitoring and emerging bloom impacts

Biodiversity Data Integration: The significance of data resolution and domain

Recent accelerated diversification in rosids occurred outside the tropics

Source pools and disharmony of the world's island floras

Climatic drivers of latitudinal variation in Late Triassic tetrapod diversity

Combining Conventional Statistics and Big Data to Map Global Tourism Destinations Before COVID-19

Yellow fever surveillance suggests zoonotic and anthroponotic emergent potential

Geovisualization of Hydrological Flow in Hexagonal Grid Systems

The Aleutians and Beyond: Distribution, Size Composition, and Catch Dynamics of the Aleutian Skate Bathyraja aleutica across the North Pacific

Animals : an open access journal from MDPI


PyTorch implementation of "Supervised Contrastive Learning"  (and SimCLR incidentally)

A Simple Framework for Contrastive Learning of Visual Representations

Supervised Contrastive Learning

Multi-Objective Interpolation Training for Robustness to Label Noise

i-Mix: A Domain-Agnostic Strategy for Contrastive Representation Learning

Contrast to Divide: Self-Supervised Pre-Training for Learning with Noisy Labels

StableRep: Synthetic Images from Text-to-Image Models Make Strong Visual Representation Learners

Hybrid Discriminative-Generative Training via Contrastive Learning

No Reason for No Supervision: Improved Generalization in Supervised Models

From Global to Local: Multi-Scale Out-of-Distribution Detection

Intent Detection and Discovery from User Logs via Deep Semi-Supervised Contrastive Clustering

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


A model-based test case generator

Automated test generation for REST APIs: no time to rest yet

Proceedings of the 31st ACM SIGSOFT International Symposium on Software Testing and Analysis

Testing RESTful APIs: A Survey

Open Problems in Fuzzing RESTful APIs: A Comparison of Tools

Model-based testing in practice: An experience report from the web applications domain

Towards Automated Assessment Generation in e-Learning Systems Using Combinatorial Testing and Formal Concept Analysis

Leveraging Large Language Models to Improve REST API Testing

Testing Real-World Healthcare IoT Application: Experiences and Lessons Learned

Proceedings of the 31st ACM Joint European Software Engineering Conference and Symposium on the Foundations of Software Engineering

Automated Test Generation for Medical Rules Web Services: A Case Study at the Cancer Registry of Norway


MatchMiner:  An open source computational platform for matching genomic profiles to precision cancer medicine clinical trials

MatchMiner: an open-source platform for cancer precision medicine

Abstract 3382: MatchMiner: An open-source computational platform for genomically-driven matching of cancer patients to precision medicine clinical trials

Abstract A024: MatchMiner: An open-source computational platform for genomically-driven matching of cancer patients to precision medicine clinical trials


The official repo for [NeurIPS'22] "ViTPose: Simple Vision Transformer Baselines for Human Pose Estimation" and [TPAMI'23] "ViTPose++: Vision Transformer for Generic Body Pose Estimation"

HyperHuman: Hyper-Realistic Human Generation with Latent Structural Diffusion

HAP: Structure-Aware Masked Image Modeling for Human-Centric Perception


Python wrapper for the PubChem PUG REST API.

webchem: An R Package to Retrieve Chemical Information from the Web

MolCA: Molecular Graph-Language Modeling with Cross-Modal Projector and Uni-Modal Adapter

Neural Networks in the Design of Molecules with Affinity to Selected Protein Domains

International journal of molecular sciences

DeepsmirUD: Prediction of Regulatory Effects on microRNA Expression Mediated by Small Molecules Using Deep Learning

ReactXT: Understanding Molecular "Reaction-ship" via Reaction-Contextualized Molecule-Text Pretraining

Artificial Intelligence in Decrypting Cytoprotective Activity under Oxidative Stress from Molecular Structure

Accurate Prediction of Free Solvation Energy of Organic Molecules via Graph Attention Network and Message Passing Neural Network from Pairwise Atomistic Interactions


DifFace: Blind Face Restoration with Diffused Error Contraction (TPAMI, 2024)

DiffBIR: Towards Blind Image Restoration with Generative Diffusion Prior

On the Vulnerability of Deepfake Detectors to Attacks Generated by Denoising Diffusion Models


RBFOpt library for black-box optimization

RBFOpt: an open-source library for black-box optimization with costly function evaluations

Constrained Discrete Black-Box Optimization using Mixed-Integer Programming

On the implementation of a global optimization method for mixed-variable problems

Dynamical learning of a photonics quantum-state engineering process

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

Daylighting design optimization of symmetrical bilateral openings with internal blinds in tropical classrooms using RBFOpt algorithm

Building Simulation Conference proceedings


Improved version of DBow2

A LiDAR/Visual SLAM Backend with Loop Closure Detection and Graph Optimization

Panoramic annular SLAM with loop closure and global optimization

Visual Features Assisted Robot Localization in Symmetrical Environment Using Laser SLAM

NYU-VPR: Long-Term Visual Place Recognition Benchmark with View Direction and Data Anonymization Influences

OpenMPR: Recognize places using multimodal data for people with visual impairments

Lightweight Object-level Topological Semantic Mapping and Long-term Global Localization based on Graph Matching

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


Python package for data handling and scenario generation of city districts

Automated urban energy system modeling and thermal building simulation based on OpenStreetMap data sets

Modellierung und Optimierung von Mischgebieten


Data objects for various sets of instruments

The MR-Base platform supports systematic causal inference across the human phenome

Genome-wide Mendelian randomization identifies actionable novel drug targets for psychiatric disorders

Neuropsychopharmacology : official publication of the American College of Neuropsychopharmacology

Epigenome-wide association study of seizures in childhood and adolescence

Genome-wide association study of cardiac troponin I in the general population


Self-Supervision for Named Entity Disambiguation at the Tail

Bootleg: Chasing the Tail with Self-Supervised Named Entity Disambiguation

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

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


Python interface to Metview meteorological workstation and batch system


auDeep is a Python toolkit for unsupervised feature learning with deep neural networks (DNNs)

auDeep: Unsupervised Learning of Representations from Audio with Deep Recurrent Neural Networks

The INTERSPEECH 2021 Computational Paralinguistics Challenge: COVID-19 Cough, COVID-19 Speech, Escalation & Primates

The ACM Multimedia 2022 Computational Paralinguistics Challenge: Vocalisations, Stuttering, Activity, & Mosquitoes

Face mask recognition from audio: The MASC database and an overview on the mask challenge

Multimodal Deep Learning Models for Detecting Dementia From Speech and Transcripts

On the Impact of Word Error Rate on Acoustic-Linguistic Speech Emotion Recognition: An Update for the Deep Learning Era

The ACM Multimedia 2023 Computational Paralinguistics Challenge: Emotion Share & Requests

Classification of Speech with and without Face Mask using Acoustic Features

A Novel Fusion of Attention and Sequence to Sequence Autoencoders to Predict Sleepiness From Speech


A python Two Source Energy Balance model for estimation of evapotranspiration with remote sensing data

Combining satellite data and appropriate objective functions for improved spatial pattern performance of a distributed hydrologic model

Feasibility of Using the Two-Source Energy Balance Model (TSEB) with Sentinel-2 and Sentinel-3 Images to Analyze the Spatio-Temporal Variability of Vine Water Status in a Vineyard

Estimation of evapotranspiration of temperate grassland based on high-resolution thermal and visible range imagery from unmanned aerial systems

Spatial pattern evaluation of a calibrated national hydrological model – a remote-sensing-based diagnostic approach

Seasonal Adaptation of the Thermal-Based Two-Source Energy Balance Model for Estimating Evapotranspiration in a Semiarid Tree-Grass Ecosystem

Influence of Model Grid Size on the Estimation of Surface Fluxes Using the Two Source Energy Balance Model and sUAS Imagery in Vineyards

Spatial Patterns in Actual Evapotranspiration Climatologies for Europe

Performance of the Two-Source Energy Balance (TSEB) Model as a Tool for Monitoring the Response of Durum Wheat to Drought by High-Throughput Field Phenotyping

Spatial Pattern Oriented Multicriteria Sensitivity Analysis of a Distributed Hydrologic Model

High Spatial and Temporal Resolution Energy Flux Mapping of Different Land Covers Using an Off-the-Shelf Unmanned Aerial System


A collection of special mathematical functions

Relativistic second-order dissipative and anisotropic fluid dynamics in the relaxation-time approximation for an ideal gas of massive particles

High-order Shakhov-like extension of the relaxation time approximation in relativistic kinetic theory

Shakhov-type extension of the relaxation time approximation in relativistic kinetic theory and second-order fluid dynamics


High-performance Lagragian tracer model, standard compliant and ready to use out-of-the-box


A research project for natural language generation, containing the official implementations by MSRA NLC team.

ProphetNet: Predicting Future N-gram for Sequence-to-Sequence Pre-training

CRITIC: Large Language Models Can Self-Correct with Tool-Interactive Critiquing

ProphetNet-X: Large-Scale Pre-training Models for English, Chinese, Multi-lingual, Dialog, and Code Generation

Text Generation with Diffusion Language Models: A Pre-training Approach with Continuous Paragraph Denoise

AR-Diffusion: Auto-Regressive Diffusion Model for Text Generation

TESS: Text-to-Text Self-Conditioned Simplex Diffusion

Enhanced Seq2Seq Autoencoder via Contrastive Learning for Abstractive Text Summarization

ProphetNet-Ads: A Looking Ahead Strategy for Generative Retrieval Models in Sponsored Search Engine

Socratic Question Generation: A Novel Dataset, Models, and Evaluation

Proceedings of the 17th Conference of the European Chapter of the Association for Computational Linguistics

Topic-Guided Abstractive Text Summarization: a Joint Learning Approach


Render transformed image tiles

A Complete Electron Microscopy Volume of the Brain of Adult Drosophila melanogaster

Functional connectomics spanning multiple areas of mouse visual cortex

A Community-Developed Open-Source Computational Ecosystem for Big Neuro Data

A Connectome of the Male Drosophila Ventral Nerve Cord

Cell-type-specific inhibitory circuitry from a connectomic census of mouse visual cortex

bioRxiv : the preprint server for biology

Petascale neural circuit reconstruction: automated methods

Multimodal cell type correspondence by intersectional mFISH in intact tissues

MagC, magnetic collection of ultrathin sections for volumetric correlative light and electron microscopy

A scalable and modular automated pipeline for stitching of large electron microscopy datasets

Joint Deformable Registration of Large EM Image Volumes: A Matrix Solver Approach


UniSpeech  - Large Scale Self-Supervised Learning for Speech

WavLM: Large-Scale Self-Supervised Pre-Training for Full Stack Speech Processing

Speak, Read and Prompt: High-Fidelity Text-to-Speech with Minimal Supervision

UniSpeech: Unified Speech Representation Learning with Labeled and Unlabeled Data

UniSpeech-SAT: Universal Speech Representation Learning with Speaker Aware Pre-Training

VioLA: Unified Codec Language Models for Speech Recognition, Synthesis, and Translation

SoundStorm: Efficient Parallel Audio Generation

NaturalSpeech 3: Zero-Shot Speech Synthesis with Factorized Codec and
  Diffusion Models

Self-Supervised Learning for speech recognition with Intermediate layer supervision

CLaM-TTS: Improving Neural Codec Language Model for Zero-Shot
  Text-to-Speech

Improving Self-Supervised Learning for Speech Recognition with Intermediate Layer Supervision

ICASSP 2022 - 2022 IEEE International Conference on Acoustics, Speech and Signal Processing (ICASSP)


SALSA: A tool to scaffold long read assemblies with Hi-C data

Integrating Hi-C links with assembly graphs for chromosome-scale assembly

Scaffolding of long read assemblies using long range contact information

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

Chromosome-level assembly of the horseshoe crab genome provides insights into its genome evolution

Population Genomic Approaches for Weed Science

Holocentromeres can consist of merely a few megabase-sized satellite arrays

Haplotype-Resolved Cattle Genomes Provide Insights Into Structural Variation and Adaptation

Scalable, accessible, and reproducible reference genome assembly and evaluation in Galaxy

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

Chromosome-scale genome assembly of bread wheat’s wild relative Triticum timopheevii


A minimap2 frontend for PacBio native data formats

Highly accurate long-read HiFi sequencing data for five complex genomes

Fully phased human genome assembly without parental data using single-cell strand sequencing and long reads

Benchmarking challenging small variants with linked and long reads

Complete vertebrate mitogenomes reveal widespread repeats and gene duplications

Split-alignment of genomes finds orthologies more accurately

Long Read based Human Genomic Structural Variation Detection with cuteSV

V-pipe: a computational pipeline for assessing viral genetic diversity from high-throughput data

SMOOTH-seq: single-cell genome sequencing of human cells on a third-generation sequencing platform

A giant NLR gene confers broad-spectrum resistance to Phytophthora sojae in soybean

Two high-quality de novo genomes from single ethanol-preserved specimens of tiny metazoans (Collembola)


scikit-learn contrib estimators

Can Transformer Language Models Predict Psychometric Properties?

Accelerating Deep Learning Classification with Error-controlled Approximate-key Caching

Parallel MCMC Without Embarrassing Failures

Improved Learning-augmented Algorithms for k-means and k-medians Clustering

Denoising with Singular Value Decomposition for Phase Identification in Power Distribution Systems

Tackling Provably Hard Representative Selection via Graph Neural Networks

Tell Me What Is Good About This Property: Leveraging Reviews For Segment-Personalized Image Collection Summarization


minorminer is a heuristic tool for minor embedding: given a minor and target graph, it tries to find a mapping that embeds the minor into the target.

Embedding Algorithms for Quantum Annealers with Chimera and Pegasus Connection Topologies

Approximate Approximation on a Quantum Annealer

Solving the Traveling Salesman Problem on the D-Wave Quantum Computer

Quantum chemistry on quantum annealers

Integer programming techniques for minor-embedding in quantum annealers

Embedding of complete graphs in broken Chimera graphs

Adiabatic Quantum Optimization Fails to Solve the Knapsack Problem

Tutorial: calibration refinement in quantum annealing

4-clique Network Minor Embedding for Quantum Annealers

On the Price of Locality in Static Fast Rerouting


Python package to retrieve data from Databank Ondergrond Vlaanderen (DOV)


MIRACL Core

A(2)RID-Anonymous Direct Authentication and Remote Identification of Commercial Drones

Hierarchical Blockchain-Based Group and Group Key Management Scheme Exploiting Unmanned Aerial Vehicles for Urban Computing

Security Review of Ethereum Beacon Clients

An Implementation Suite for a Hybrid Public Key Infrastructure


Python implementation of behaviour trees.

A Survey of Behavior Trees in Robotics and AI

Behavior trees in action: a study of robotics applications

Combining Planning and Learning of Behavior Trees for Robotic Assembly

Replication package for article: Behavior Trees in Action: A Study of Robotics Applications

Distributed Behavior Trees for Heterogeneous Robot Teams

Flexible Behavior Trees: In search of the mythical HFSMBTH for Collaborative Autonomy in Robotics

BeBOP - Combining Reactive Planning and Bayesian Optimization to Solve Robotic Manipulation Tasks

Efficiently Evolving Swarm Behaviors Using Grammatical Evolution With PPA-style Behavior Trees

Verifying Safety of Behaviour Trees in Event-B


The Information Dynamics Toolkit xl (IDTxl) is a comprehensive software package for efficient inference of networks and their node dynamics from multivariate time series data using information theory.

Large-scale directed network inference with multivariate transfer entropy and hierarchical statistical testing

IDTxl: The Information Dynamics Toolkit xl: a Python package for the efficient analysis of multivariate information dynamics in networks

Bits and pieces: understanding information decomposition from part-whole relationships and formal logic

Proceedings. Mathematical, physical, and engineering sciences

Introducing a differentiable measure of pointwise shared information

Inferring network properties from time series using transfer entropy and mutual information: validation of multivariate versus bivariate approaches

Information Theory for Complex Systems Scientists

Quantifying the Predictability of Visual Scanpaths Using Active Information Storage

Information theoretic evidence for layer- and frequency-specific changes in cortical information processing under anesthesia

Interaction-Aware Sensitivity Analysis for Aerodynamic Optimization Results using Information Theory

Inferring network properties from time series via transfer entropy and mutual information: validation of bivariate versus multivariate approaches


Data and tools for generating and inspecting OLMo pre-training data.

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

Scaling Language Models: Methods, Analysis & Insights from Training Gopher

Dolma: an Open Corpus of Three Trillion Tokens for Language Model
  Pretraining Research

MEDITRON-70B: Scaling Medical Pretraining for Large Language Models

A Survey on Data Selection for Language Models

Infini-gram: Scaling Unbounded n-gram Language Models to a Trillion
  Tokens

Optimizing Distributed Training on Frontier for Large Language Models

AboutMe: Using Self-Descriptions in Webpages to Document the Effects of English Pretraining Data Filters

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

Large Language Models Meet Computer Vision: A Brief Survey


GA4GH Variation Representation Python Implementation

The GA4GH Variation Representation Specification: A computational framework for variation representation and federated identification

The GA4GH Variation Representation Specification (VRS): a Computational Framework for the Precise Representation and Federated Identification of Molecular Variation

Development and application of a computable genotype model in the GA4GH Variation Representation Specification


Official repository for design of the quantum programming language Q# and its core libraries

OpenQASM 3: A broader and deeper quantum assembly language

A MLIR Dialect for Quantum Assembly Languages

QFaaS: A Serverless Function-as-a-Service Framework for Quantum Computing

Studying chirality imbalance with quantum algorithms

QParallel: Explicit Parallelism for Programming Quantum Computers

Enabling Retargetable Optimizing Compilers for Quantum Accelerators via a Multi-Level Intermediate Representation

Characterizing the Inter-Core Qubit Traffic in Large-Scale Quantum Modular Architectures


XTREME is a benchmark for the evaluation of the cross-lingual generalization ability of pre-trained multilingual models that covers 40 typologically diverse languages and includes nine tasks.

XTREME: A Massively Multilingual Multi-task Benchmark for Evaluating Cross-lingual Generalization

XTREME-R: Towards More Challenging and Nuanced Multilingual Evaluation

FILTER: An Enhanced Fusion Method for Cross-lingual Language Understanding

Consistency Regularization for Cross-Lingual Fine-Tuning

Explicit Alignment Objectives for Multilingual Bidirectional Encoders

Enhancing Cross-lingual Transfer by Manifold Mixup

Frustratingly Easy Label Projection for Cross-lingual Transfer

Evaluating the Diversity, Equity and Inclusion of NLP Technology: A Case Study for Indian Languages

VECO 2.0: Cross-lingual Language Model Pre-training with Multi-granularity Contrastive Learning

MELM: Data Augmentation with Masked Entity Language Modeling for Cross-lingual NER.


Accurate and Efficient Refactoring Detection in Commit History

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

Why We Refactor? Confessions of GitHub Contributors

RefactoringMiner 2.0

IEEE Transactions on Software Engineering

HOW DOES REFACTORING AFFECT INTERNAL QUALITY ATTRIBUTES?: A MULTI-PROJECT STUDY

XXXI BRAZILIAN SYMPOSIUM ON SOFTWARE ENGINEERING (SBES 2017)

The Technical Debt Dataset

Predictive Models in Software Engineering

On the Impact of Refactoring on the Relationship between Quality Attributes and Design Metrics

Understanding the impact of refactoring on smells: a longitudinal study of 23 software projects

Understanding the use of lambda expressions in Java

Proceedings of the ACM on Programming Languages

Can Refactoring Be Self-Affirmed? An Exploratory Study on How Developers Document Their Refactoring Activities in Commit Messages

2019 IEEE/ACM 3rd International Workshop on Refactoring (IWoR)

Improving Source Code Readability: Theory and Practice

International Conference on Program Comprehension


A modular framework for neural networks with Euclidean symmetry

Tensor field networks: Rotation- and translation-equivariant neural networks for 3D point clouds

3D Steerable CNNs: Learning Rotationally Equivariant Features in Volumetric Data

Recent advances and applications of deep learning methods in materials science

Clebsch-Gordan Nets: a Fully Fourier Space Spherical Convolutional Neural Network

A Practical Method for Constructing Equivariant Multilayer Perceptrons for Arbitrary Matrix Groups

e3nn: Euclidean Neural Networks

Relevance of Rotationally Equivariant Convolutions for Predicting Molecular Properties

Direct Prediction of Phonon Density of States With Euclidean Neural Networks

Finding Symmetry Breaking Order Parameters with Euclidean Neural Networks

Rotation-Equivariant Deep Learning for Diffusion MRI


Python particle tracking toolkit

Cooling the Motion of Diamond Nanocrystals in a Magneto-Gravitational Trap in High Vacuum

Measuring NDC80 binding reveals the molecular basis of tension-dependent kinetochore-microtubule attachments

Regulated Activation of the PAR Polarity Network Ensures a Timely and Specific Response to Spatial Cues

Integrated single- and two-photon light sheet microscopy using accelerating beams

Skyrmion Lattice Phases in Thin Film Multilayer

Electrical Polarization Enables Integrative Quality Control during Bacterial Differentiation into Spores

Formation of functional, non-amyloidogenic fibres by recombinant Bacillus subtilis TasA

Light Microscopy at Maximal Precision

Dynamics of the vapor layer below a Leidenfrost drop

Physical review. E, Statistical, nonlinear, and soft matter physics

motilitAI: A machine learning framework for automatic prediction of human sperm motility