Survival analysis with PyTorch

DeepSurv: personalized treatment recommender system using a Cox proportional hazards deep neural network

Time-to-Event Prediction with Neural Networks and Cox Regression

A scalable discrete-time survival model for neural networks

Continuous and Discrete-Time Survival Prediction with Neural Networks

Deep Neural Networks for Survival Analysis Based on a Multi-Task Framework

Prediction of prognostic risk factors in hepatocellular carcinoma with transarterial chemoembolization using multi-modal multi-task deep learning

SurvTRACE: Transformers for Survival Analysis with Competing Events

Gradient boosting survival tree with applications in credit scoring

Journal of the Operational Research Society

The Brier Score under Administrative Censoring: Problems and Solutions

Predicting time-to-conversion for dementia of Alzheimer's type using multi-modal deep survival analysis


A collection of datasets that pair questions with SQL queries.

Improving Text-to-SQL Evaluation Methodology

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

Natural Language Processing Advancements By Deep Learning: A Survey

Recent Advances in SQL Query Generation: A Survey


pycallgraph is a Python module that creates call graphs for Python programs.

PyCG: Practical Call Graph Generation in Python

Toward Efficient Interactions between Python and Native Libraries

PROCEEDINGS OF THE 29TH ACM JOINT MEETING ON EUROPEAN SOFTWARE ENGINEERING CONFERENCE AND SYMPOSIUM ON THE FOUNDATIONS OF SOFTWARE ENGINEERING (ESEC/FSE '21)

Context-Aware Code Generation Framework for Code Repositories: Local,
  Global, and Third-Party Library Awareness


Modern C++ quantum computing library

Open source software in quantum computing

Quantum++: A modern C++ quantum computing library

Secure quantum computing for healthcare sector: A short analysis

Classical Computer Assisted Analysis of Small Multiqudit Systems


An implementation of the QUIC transport protocol.

MVFST-RL: An Asynchronous RL Framework for Congestion Control with Delayed Actions.

Revisiting QUIC attacks: a comprehensive review on QUIC security and a hands-on study

SQP: Congestion Control for Low-Latency Interactive Video Streaming

Revisiting WiFi offloading in the wild for V2I applications

QUIC on the Highway: Evaluating Performance on High-rate Links

2023 IFIP Networking Conference (IFIP Networking)


AntroPy: entropy and complexity of (EEG) time-series in Python

An Exploratory Study on the Complexity and Machine Learning Predictability of Stock Market Data

Entropy Approximation by Machine Learning Regression: Application for Irregularity Evaluation of Images in Remote Sensing

How Does It Function? Characterizing Long-term Trends in Production Serverless Workloads

Proceedings of the 2023 ACM Symposium on Cloud Computing

Neural Network Entropy (NNetEn): Entropy-Based EEG Signal and Chaotic Time Series Classification, Python Package for NNetEn Calculation

The Structure of Chaos: An Empirical Comparison of Fractal Physiology Complexity Indices Using NeuroKit2

Sleep and cognition in aging dogs. A polysomnographic study


A miniaturized version of the Arcade Learning Environment.

The Arcade Learning Environment: An Evaluation Platform for General Agents

PROCEEDINGS OF THE TWENTY-FOURTH INTERNATIONAL JOINT CONFERENCE ON ARTIFICIAL INTELLIGENCE (IJCAI)

MinAtar: An Atari-Inspired Testbed for Thorough and Reproducible Reinforcement Learning Experiments

Revisiting Rainbow: Promoting more insightful and inclusive deep reinforcement learning research

Gradient Temporal-Difference Learning with Regularized Corrections

MinAtar: An Atari-inspired Testbed for More Efficient Reinforcement Learning Experiments.


A library containing analysis and theory tools for cosmological data.

Cosmology with the moving lens effect

Reconstructing patchy reionization with deep learning

Projected-field kinetic Sunyaev-Zel'dovich Cross-correlations: halo model and forecasts

Reconstructing cosmic polarization rotation with ResUNet-CMB

Prospects for kSZ^2-Galaxy Cross-Correlations during Reionization

Recovering Galaxy Cluster Convergence from Lensed CMB with Generative
  Adversarial Networks

High-Resolution CMB Lensing Reconstruction with Deep Learning


Software for selective inference

Adaptive p-values after cross-validation

Inferactive data analysis

Inference After Selecting Plausibly Valid Instruments with Application to Mendelian Randomization

Black-box Selective Inference via Bootstrapping

An Exact Sampler for Inference after Polyhedral Model Selection


RL Environments in JAX

Discovering Evolution Strategies via Meta-Black-Box Optimization

VMAS: A Vectorized Multi-Agent Simulator for Collective Robot Learning

Discovering Attention-Based Genetic Algorithms via Meta-Black-Box Optimization

Jumanji: a Diverse Suite of Scalable Reinforcement Learning Environments
  in JAX

Pgx: Hardware-Accelerated Parallel Game Simulators for Reinforcement
  Learning

JaxMARL: Multi-Agent RL Environments in JAX

JAX-LOB: A GPU-Accelerated limit order book simulator to unlock large scale reinforcement learning for trading

Scaling Opponent Shaping to High Dimensional Games


R package implementing analysis tools for lattice QCD

Scattering of two and three physical pions at maximal isospin from lattice QCD

Hadron–Hadron interactions from
    N_f=2+1+1
Nf=2+1+1 lattice QCD: the
    ρ
ρ-resonance

Relativistic N-particle energy shift in finite volume

The Journal of high energy physics/The journal of high energy physics

The ρ-resonance with physical pion mass from N_f=2 lattice QCD

Digitising SU(2) gauge fields and the freezing transition

Three-body resonances in the φ^4 theory

Elastic π-N scattering in the I=3/2 channel


An NLP library for the Urdu language. It comes with a lot of battery included features to help you process Urdu data in the easiest way possible.

IndicTrans2: Towards High-Quality and Accessible Machine Translation
  Models for all 22 Scheduled Indian Languages

MECI: A Multilingual Dataset for Event Causality Identification

International Conference on Computational Linguistics


Diffusion MRI Simulation Toolbox in Matlab

Challenges for biophysical modeling of microstructure

SpinDoctor: A MATLAB toolbox for diffusion MRI simulation

Diffusion MRI simulation of realistic neurons with SpinDoctor and the Neuron Module

Practical computation of the diffusion MRI signal of realistic neurons based on Laplace eigenfunctions


DEPRECATED. The latest floris is at https://github.com/nrel/floris

A simulation study demonstrating the importance of large-scale trailing vortices in wake steering

Robust active wake control in consideration of wind direction variability and uncertainty

Zenodo (CERN European Organization for Nuclear Research)

Engineering models for turbine wake velocity deficit and wake deflection. A new proposed approach for onshore and offshore applications

Model-based closed-loop wind farm control for power maximization using Bayesian Optimization: a large eddy simulation study


Generate and process BAM files from Illumina sequencing instrument files

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

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

DNA methylation QTL analysis identifies new regulators of human longevity

Human molecular genetics online/Human molecular genetics

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

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

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

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

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

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

The Evolutionary History of New Zealand Deschampsia Is Marked by Long-Distance Dispersal, Endemism, and Hybridization


Transformers learn in-context by gradient descent

Texture Generation with Neural Cellular Automata

μNCA: Texture Generation with Ultra-Compact Neural Cellular Automata

MPLP: Learning a Message Passing Learning Protocol

Growing Steerable Neural Cellular Automata


A Python framework for sequence labeling evaluation(named-entity recognition, pos tagging, etc...)

Multi-Domain Goal-Oriented Dialogues (MultiDoGO): Strategies toward Curating and Annotating Large Scale Dialogue Data

Empirical Methods in Natural Language Processing

Improving Multilingual Models with Language-Clustered Vocabularies

Learning to Classify Intents and Slot Labels Given a Handful of Examples

Indic-Transformers: An Analysis of Transformer Language Models for Indian Languages.

Joint Chinese Word Segmentation and Part-of-speech Tagging via Multi-channel Attention of Character N-grams

No One Left Behind: Inclusive Federated Learning over Heterogeneous Devices

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

PERT: Pre-training BERT with Permuted Language Model

LINGUIST: Language Model Instruction Tuning to Generate Annotated
  Utterances for Intent Classification and Slot Tagging

Downstream Datasets Make Surprisingly Good Pretraining Corpora

Event Causality Identification with Causal News Corpus - Shared Task 3, CASE 2022


Metabolome Annotation Workflow

MAW: the reproducible Metabolome Annotation Workflow for untargeted tandem mass spectrometry

Toward a Framework for Integrative, FAIR, and Reproducible Management of Data on the Dynamic Balance of Microbial Communities

Analysis of Metabolomics and Transcriptomics Data to Assess Interactions in Microalgal Co-culture of Skeletonema marinoi and Prymnesium parvum

Untargeted metabolomics to expand the chemical space of the marine diatom Skeletonema marinoi


Creative Commons Attribution Share Alike 4.0 International

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

International Conference on Information and Knowledge Management

FunMap: Efficient Execution of Functional Mappings for Knowledge Graph Creation

Declarative RDF graph generation from heterogeneous (semi-)structured data: A systematic literature review

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

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


MRI reconstruction (e.g., QSM) using deep learning methods

xQSM-Quantitative Susceptibility Mapping with Octave Convolutional Neural Networks

Instant tissue field and magnetic susceptibility mapping from MR raw phase using Laplacian enabled deep neural networks

Accelerating quantitative susceptibility and R2* mapping using incoherent undersampling and deep neural network reconstruction

BFRnet: A deep learning-based MR background field removal method for QSM of the brain containing significant pathological susceptibility sources

Plug-and-Play Latent Feature Editing for Orientation-Adaptive
  Quantitative Susceptibility Mapping Neural Networks


Tools for conducting and parsing web search

Engagement Outweighs Exposure to Partisan and Unreliable News within
  Google Search

Searching for Representation: A sociotechnical audit of googling for members of U.S. Congress.

Googling for Abortion: Search Engine Mediation of Abortion Accessibility in the United States

Journal of quantitative description: digital media


The Global Virome in One Network

The Global Virome in One Network (VIRION): an Atlas of Vertebrate-Virus Associations

Mammal virus diversity estimates are unstable due to accelerating discovery effort

Viral genomic features predict orthopoxvirus reservoir hosts

bioRxiv : the preprint server for biology


Creative Commons Attribution 4.0 International

Name Reaction Ontology

Linking the Neural Machine Translation and the Prediction of Organic Chemistry Reactions.

Inferring Experimental Procedures from Text-Based Representations of Chemical Reactions

Bio-SimVerb and Bio-SimLex: wide-coverage evaluation sets of word similarity in biomedicine

NFDI4Chem - Towards a National Research Data Infrastructure for Chemistry in Germany

Overview of chemical ontologies


Next-Gen Sequencing tools from the Horvath Lab

SCReadCounts: estimation of cell-level SNVs expression from scRNA-seq data

RNA2DNAlign: nucleotide resolution allele asymmetries through quantitative assessment of RNA and DNA paired sequencing data

ReQTL: identifying correlations between expressed SNVs and gene expression using RNA-sequencing data

SCReadCounts: Estimation of cell-level SNVs from scRNA-seq data


Codebase for "SLIDE : In Defense of Smart Algorithms over Hardware Acceleration for Large-Scale Deep Learning Systems"

Accelerating SLIDE Deep Learning on Modern CPUs: Vectorization, Quantizations, Memory Optimizations, and More

Heterogeneous CPU+GPU Stochastic Gradient Descent Algorithms

Adaptive Optimization for Sparse Data on Heterogeneous GPUs


Parallel tempering MCMC sampler package written in Python

The NANOGrav 11-year Data Set: High-precision Timing of 45 Millisecond Pulsars

The Astrophysical journal. Supplement series/Astrophysical journal. Supplement series

The NANOGrav 11 Year Data Set: Pulsar-timing Constraints on the Stochastic Gravitational-wave Background

THE NANOGRAV NINE-YEAR DATA SET: LIMITS ON THE ISOTROPIC STOCHASTIC GRAVITATIONAL WAVE BACKGROUND

Common-red-signal analysis with 24-yr high-precision timing of the European Pulsar Timing Array: inferences in the stochastic gravitational-wave background search

Monthly Notices of the Royal Astronomical Society

The NANOGrav 11 yr Data Set: Limits on Gravitational Waves from Individual Supermassive Black Hole Binaries

Pulsar Timing Array Constraints on Primordial Black Holes with NANOGrav 11-Year Dataset

Modeling the Uncertainties of Solar System Ephemerides for Robust Gravitational-wave Searches with Pulsar-timing Arrays

Constraining Cosmological Phase Transitions with the Parkes Pulsar Timing Array

Constraints on the Dynamical Environments of Supermassive Black-Hole Binaries Using Pulsar-Timing Arrays.

DETECTING ECCENTRIC SUPERMASSIVE BLACK HOLE BINARIES WITH PULSAR TIMING ARRAYS: RESOLVABLE SOURCE STRATEGIES


Simulation-Based Calibration Checking for Bayesian Computation: The
  Choice of Test Quantities Shapes Sensitivity

Intuitive joint priors for Bayesian linear multilevel models: The R2D2M2 prior


Snow Microwave Radiative Transfert model to compute thermal emission and backscatter from snowpack

SMRT: an active–passive microwave radiative transfer model for snow with multiple microstructure and scattering formulations (v1.0)

The Microwave Snow Grain Size: A New Concept to Predict Satellite Observations Over Snow‐Covered Regions


Open source software for product footprinting.


Wikipedia tools (for Humans): easily extract data from Wikipedia, Wikidata, and other MediaWikis

Patchscopes: A Unifying Framework for Inspecting Hidden Representations
  of Language Models

TAPE: Assessing Few-shot Russian Language Understanding


Extensive subclonal mutational diversity in human colorectal cancer and its significance

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

Different rates of spontaneous mutation of chloroplastic and nuclear viroids as determined by high-fidelity ultra-deep sequencing

Genome-Wide Estimation of the Spontaneous Mutation Rate of Human Adenovirus 5 by High-Fidelity Deep Sequencing


Utilities and scripts for working with NEON data. Currently: an R package with functions to join (stack) the month-by-site files in downloaded NEON data, to convert data to geoCSV format, and to download data from the API.

The NEON Daily Isotopic Composition of Environmental Exchanges Dataset


Komondor Wireless Networks Simulator

Wi-Fi Meets ML: A Survey on Improving IEEE 802.11 Performance With Machine Learning

To overlap or not to overlap: Enabling Channel Bonding in High-Density
  WLANs

Potential and pitfalls of Multi-Armed Bandits for decentralized Spatial Reuse in WLANs

Journal of network and computer applications

Spatial Reuse in IEEE 802.11ax WLANs

Komondor: a Wireless Network Simulator for Next-Generation High-Density WLANs

Usage of Network Simulators in Machine-Learning-Assisted 5G/6G Networks

On the Performance of the Spatial Reuse Operation in IEEE 802.11ax WLANs

Machine learning for performance prediction of channel bonding in next-generation IEEE 802.11 WLANS


CAIRI Supervised, Semi- and Self-Supervised Visual Representation Learning Toolbox and Benchmark

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

A Simple Framework for Contrastive Learning of Visual Representations

Momentum Contrast for Unsupervised Visual Representation Learning

mixup: Beyond Empirical Risk Minimization

Fixed-Confidence Guarantees for Bayesian Best-Arm Identification

Masked Autoencoders Are Scalable Vision Learners

CutMix: Regularization Strategy to Train Strong Classifiers with Localizable Features

A ConvNet for the 2020s

Unsupervised Feature Learning via Non-Parametric Instance-level Discrimination

Exploring Simple Siamese Representation Learning


CMU US English Dictionary

Instruction Induction: From Few Examples to Natural Language Task Descriptions

Watch Those Words: Video Falsification Detection Using Word-Conditioned Facial Motion

Content based singing voice source separation via strong conditioning using aligned phonemes

PronouncUR: An Urdu Pronunciation Lexicon Generator

On Biasing Transformer Attention Towards Monotonicity

Unsupervised Lexical Substitution with Decontextualised Embeddings

Speech Data Augmentation for Improving Phoneme Transcriptions of Aphasic Speech Using Wav2Vec 2.0 for the PSST Challenge

The Xiaomi Text-to-Text Simultaneous Speech Translation System for IWSLT 2022

Proceedings of the 19th International Conference on Spoken Language Translation (IWSLT 2022)

Semantic properties of English nominal pluralization: Insights from word
  embeddings

Making sense of spoken plurals


E(2)-Equivariant CNNs Library for Pytorch

Steerable CNNs

General E(2)-Equivariant Steerable CNNs

Rotation Equivariant Siamese Networks for Tracking

Visual Representation Learning Does Not Generalize Strongly Within the Same Domain

Fanaroff-Riley classification of radio galaxies using group-equivariant convolutional neural networks

Monthly notices of the Royal Astronomical Society

Equivariant neural networks for inverse problems

Steerable Partial Differential Operators for Equivariant Neural Networks

A Data and Compute Efficient Design for Limited-Resources Deep Learning

Deep Neural Networks with Efficient Guaranteed Invariances

Rescaling CNN through Learnable Repetition of Network Parameters


Densely Connected Convolutional Networks, In CVPR 2017 (Best Paper Award).

Cyclical Learning Rates for Training Neural Networks

Convolutional Neural Networks for Image-Based High-Throughput Plant Phenotyping: A Review

Memory-Efficient Implementation of DenseNets

Practices and Applications of Convolutional Neural Network-Based Computer Vision Systems in Animal Farming: A Review

Deep Expander Networks: Efficient Deep Networks from Graph Theory

Automatic Sparse Connectivity Learning for Neural Networks

Log-DenseNet: How to Sparsify a DenseNet

Backbones-Review: Feature Extraction Networks for Deep Learning and Deep
  Reinforcement Learning Approaches

Multiactivation Pooling Method in Convolutional Neural Networks for Image Recognition

Wireless communications and mobile computing


Medusa: Simple Framework for Accelerating LLM Generation with Multiple Decoding Heads

Medusa: Simple LLM Inference Acceleration Framework with Multiple
  Decoding Heads

Towards Efficient Generative Large Language Model Serving: A Survey from
  Algorithms to Systems

HexGen: Generative Inference of Foundation Model over Heterogeneous
  Decentralized Environment


SPECTRE: Short packet communication toolbox

Toward Massive, Ultrareliable, and Low-Latency Wireless Communication With Short Packets

Short-Packet Communications Over Multiple-Antenna Rayleigh-Fading Channels

Wiretap Channels: Nonasymptotic Fundamental Limits

On Systematic Polarization-Adjusted Convolutional (PAC) Codes

Finite-Blocklength Bounds for Wiretap Channels

Optimum Power Control at Finite Blocklength

Coherent multiple-antenna block-fading channels at finite blocklength

Low-latency Ultra Reliable 5G Communications: Finite-Blocklength Bounds and Coding Schemes

Interleaved Polar (I-Polar) Codes

Lossless Source Coding in the Point-to-Point, Multiple Access, and Random Access Scenarios

International Symposium on Information Theory


AQUAS TF and histone ChIP-seq pipeline

A compendium and comparative epigenomics analysis of cis-regulatory elements in the pig genome

Super-Enhancer-Associated LncRNA UCA1 Interacts Directly with AMOT to Activate YAP Target Genes in Epithelial Ovarian Cancer

Denoising genome-wide histone ChIP-seq with convolutional neural networks

Non-coding somatic mutations converge on the PAX8 pathway in ovarian cancer

Modulating Androgen Receptor-Driven Transcription in Prostate Cancer with Selective CDK9 Inhibitors

Anopheles mosquitoes reveal new principles of 3D genome organization in insects

Deep learning models predict regulatory variants in pancreatic islets and refine type 2 diabetes association signals

KLF4 Recruits SWI/SNF to Increase Chromatin Accessibility and Reprogram the Endothelial Enhancer Landscape under Laminar Shear Stress

Single nucleus multiomics identifies ZEB1 and MAFB as candidate regulators of Alzheimer’s disease-specific cis-regulatory elements

PDGFRA defines the mesenchymal stem cell Kaposi's sarcoma progenitors by enabling KSHV oncogenesis in an angiogenic environment


Contribute Packages to Bioconductor

DOSCHEDA: a web application for interactive chemoproteomics data analysis

CBEA: Competitive balances for taxonomic enrichment analysis


Torch implementation of "Enhanced Deep Residual Networks for Single Image Super-Resolution"

Image Super-Resolution by Neural Texture Transfer

Noise Conditional Flow Model for Learning the Super-Resolution Space

FS-NCSR: Increasing Diversity of the Super-Resolution Space via Frequency Separation and Noise-Conditioned Normalizing Flow

Super-Resolving Beyond Satellite Hardware Using Realistically Degraded Images


Photo-Realistic Single Image Super-Resolution Using a Generative Adversarial Network

Is the deconvolution layer the same as a convolutional layer?

Maintaining Natural Image Statistics with the Contextual Loss

Journey Towards Tiny Perceptual Super-Resolution

SRPGAN: Perceptual Generative Adversarial Network for Single Image Super Resolution

Improved SRGAN for Remote Sensing Image Super-Resolution Across Locations and Sensors

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

AIM 2020 Challenge on Image Extreme Inpainting

Texture Hallucination for Large-Factor Painting Super-Resolution


Tools for manipulating biological data, particularly multiple sequence alignments

Compact and highly active next-generation libraries for CRISPR-mediated gene repression and activation

Plastid: nucleotide-resolution analysis of next-generation sequencing and genomics data

Comparative Genomics Reveals Accelerated Evolution in Conserved Pathways during the Diversification of Anole Lizards

Methylartist: tools for visualizing modified bases from nanopore sequence data

Temporally divergent regulatory mechanisms govern neuronal diversification and maturation in the mouse and marmoset neocortex


Awesome work on object 6 DoF pose estimation

Real-Time Simultaneous Pose and Shape Estimation for Articulated Objects Using a Single Depth Camera

IEEE transactions on pattern analysis and machine intelligence

Inferring Salient Objects from Human Fixations

Pix2Vox++: Multi-scale Context-aware 3D Object Reconstruction from Single and Multiple Images

International journal of computer vision

Learning Single-Image 3D Reconstruction by Generative Modelling of Shape, Pose and Shading

Dense Semantic 3D Reconstruction

Novel Views of Objects from a Single Image

Learning Category-Specific Deformable 3D Models for Object Reconstruction

Hand-Object Contact Force Estimation from Markerless Visual Tracking

Latent-Class Hough Forests for 6 DoF Object Pose Estimation

SurfelMeshing: Online Surfel-Based Mesh Reconstruction


Official reinforcement learning environment for demand response and load shaping

Addressing Function Approximation Error in Actor-Critic Methods

Soft Actor-Critic Algorithms and Applications

NeoRL: A Near Real-World Benchmark for Offline Reinforcement Learning

CityLearn: Standardizing Research in Multi-Agent Reinforcement Learning
  for Demand Response and Urban Energy Management

Real-world challenges for multi-agent reinforcement learning in grid-interactive buildings

A Centralised Soft Actor Critic Deep Reinforcement Learning Approach to District Demand Side Management through CityLearn

Off-the-Grid MARL: Datasets with Baselines for Offline Multi-Agent
  Reinforcement Learning


Differential expression analysis for single-cell RNA-seq data.

Emerging Roles of Airway Epithelial Cells in Idiopathic Pulmonary Fibrosis

Lineage commitment of dermal fibroblast progenitors is controlled by Kdm6b‐mediated chromatin demethylation

Single cell RNA sequencing reveals distinct clusters of Irf8-expressing pulmonary conventional dendritic cells

Lineage Commitment of Dermal Fibroblast Progenitors is Mediated by Chromatin De-repression.

Immunogenomic profile at baseline predicts host susceptibility to clinical malaria


AudioLDM: Generate speech, sound effects, music and beyond, with text.

AudioLDM: Text-to-Audio Generation with Latent Diffusion Models

WavCaps: A ChatGPT-Assisted Weakly-Labelled Audio Captioning Dataset for
  Audio-Language Multimodal Research

U-DiT TTS: U-Diffusion Vision Transformer for Text-to-Speech

V2A-Mapper: A Lightweight Solution for Vision-to-Audio Generation by
  Connecting Foundation Models

Synth-AC: Enhancing Audio Captioning with Synthetic Supervision


An R implementation of the UpSet set visualization technique published by Lex, Gehlenborg, et al..

UpSetR: an R package for the visualization of intersecting sets and their properties

The genome of the yellow potato cyst nematode, Globodera rostochiensis, reveals insights into the basis of parasitism and virulence

Natural genetic variation determines microglia heterogeneity in wild-derived mouse models of Alzheimer’s disease

The Pacific harbor seal gut microbiota in Mexico: Its relationship with diet and functional inferences

Phenome-wide analysis of Taiwan Biobank reveals novel glycemia-related loci and genetic risks for diabetes

Relationships among Fecal, Air, Oral, and Tracheal Microbial Communities in Pigs in a Respiratory Infection Disease Model

Integrative omics identifies conserved and pathogen-specific responses of sepsis-causing bacteria

Statin therapy inhibits fatty acid synthase via dynamic protein modifications

A first perturbome of Pseudomonas aeruginosa: Identification of core genes related to multiple perturbations by a machine learning approach

The Phage-shock-protein (PSP) Envelope Stress Response: Discovery of Novel Partners and Evolutionary History


PESQ (Perceptual Evaluation of Speech Quality) Wrapper for Python Users (narrow band and wide band)

TorchAudio: Building Blocks for Audio and Speech Processing

BigVGAN: A Universal Neural Vocoder with Large-Scale Training

On the Compensation Between Magnitude and Phase in Speech Separation

Investigating Self-Supervised Learning for Speech Enhancement and Separation

TF-GridNet: Integrating Full- and Sub-Band Modeling for Speech
  Separation

Unsupervised Speech Enhancement Using Dynamical Variational Autoencoders

Atss-Net: Target Speaker Separation via Attention-based Neural Network

Speech Denoising Without Clean Training Data: A Noise2Noise Approach

STFT-Domain Neural Speech Enhancement With Very Low Algorithmic Latency

Convolutive Prediction for Monaural Speech Dereverberation and Noisy-Reverberant Speaker Separation


A standardized Python API with necessary preprocessing, machine learning and explainability tools to facilitate graph-analytics in computational pathology.

Hierarchical Graph Representations in Digital Pathology

Quantifying Explainers of Graph Neural Networks in Computational Pathology

Learning Whole-Slide Segmentation from Inexact and Incomplete Labels using Tissue Graphs

HistoCartography: A Toolkit for Graph Analytics in Digital Pathology

Explainable AI for Bioinformatics: Methods, Tools, and Applications


Generate fully parametric face images from the Basel Face Model 2017

Morphable Face Models - An Open Framework

Empirically Analyzing the Effect of Dataset Biases on Deep Face Recognition Systems

Training Deep Face Recognition Systems with Synthetic Data

Can Synthetic Faces Undo the Damage of Dataset Bias to Face Recognition and Facial Landmark Detection


Core Lightning — Lightning Network implementation focusing on spec compliance and performance

High Throughput Cryptocurrency Routing in Payment Channel Networks

Topological Analysis of Bitcoin's Lightning Network

Flash: Efficient Dynamic Routing for Offchain Networks

A comprehensive survey on smart contract construction and execution: paradigms, tools, and systems

Blockchain-Based Payment Channel Networks: Challenges and Recent Advances

How to profit from payments channels

The CLoTH Simulator for HTLC Payment Networks with Introductory Lightning Network Performance Results

Counting Down Thunder: Timing Attacks on Privacy in Payment Channel Networks

How Lightning's Routing Diminishes its Anonymity

LNGate: Powering IoT with Next Generation Lightning Micro-payments using Threshold Cryptography


This repo contains the projects: 'Virtual Normal', 'DiverseDepth', and '3D Scene Shape'. They aim to solve the monocular depth estimation, 3D scene reconstruction from single image problems.

Enforcing geometric constraints of virtual normal for depth prediction

Learning to Recover 3D Scene Shape from a Single Image

Towards Accurate Reconstruction of 3D Scene Shape from A Single
  Monocular Image

Monocular Depth Estimation: a Review of the 2022 State of the Art

Consistent Multimodal Generation via A Unified GAN Framework


A bayesian pipeline for detecting stochastic backgrounds with LISA.

Cosmology with the Laser Interferometer Space Antenna

Mapping the gravitational-wave sky with LISA: a Bayesian spherical harmonic approach


SONAR, a new multilingual and multimodal fixed-size sentence embedding space, with a full suite of speech and text encoders and decoders.

No Language Left Behind: Scaling Human-Centered Machine Translation

SeamlessM4T: Massively Multilingual & Multimodal Machine Translation

Seamless: Multilingual Expressive and Streaming Speech Translation

SONAR: Sentence-Level Multimodal and Language-Agnostic Representations


Minimum Information About a Plant Phenotyping Experiment

Enabling reusability of plant phenomic datasets with MIAPPE 1.1

Applying FAIR Principles to Plant Phenotypic Data Management in GnpIS

Quinoa Phenotyping Methodologies: An International Consensus


SpeX Prism Spectral Analysis Toolkit

A JWST/NIRCam Study of Key Contributors to Reionization: The
  Star-forming and Ionizing Properties of UV-faint z∼7-8 Galaxies

An eclipsing substellar binary in a young triple system discovered by SPECULOOS

The SpeX Prism Library Analysis Toolkit (SPLAT): A Data Curation Model

High-contrast Thermal Infrared Spectroscopy with ALES: The 3-4 mu m Spectrum of kappa Andromedae b


Ground heat transfer calculation tool


Shared repository for open-sourced projects from the Google AI Language team.

Natural Questions: A Benchmark for Question Answering Research

Transactions of the Association for Computational Linguistics

REALM: Retrieval-Augmented Language Model Pre-Training

Latent Retrieval for Weakly Supervised Open Domain Question Answering

What Makes Good In-Context Examples for GPT-3?

Sparse, Dense, and Attentional Representations for Text Retrieval

Fusion of Detected Objects in Text for Visual Question Answering

Time-Aware Language Models as Temporal Knowledge Bases

Thieves on Sesame Street! Model Extraction of BERT-based APIs

Compositional Generalization and Natural Language Variation: Can a Semantic Parsing Approach Handle Both?

Canine: Pre-training an Efficient Tokenization-Free Encoder for Language Representation


NGMLR is a long-read mapper designed to align PacBio or Oxford Nanopore (standard and ultra-long) to a reference genome with a focus on reads that span structural variations

Accurate detection of complex structural variations using single molecule sequencing

Technology dictates algorithms: Recent developments in read alignment

De Novo Assembly of Two Swedish Genomes Reveals Missing Segments from the Human GRCh38 Reference and Improves Variant Calling of Population-Scale Sequencing Data

Long-read sequencing reveals widespread intragenic structural variants in a recent allopolyploid crop plant

A pipeline for complete characterization of complex germline rearrangements from long DNA reads

The human origin recognition complex is essential for pre-RC assembly, mitosis, and maintenance of nuclear structure

Study of complex structural variations of X-linked deafness-2 based on single-molecule sequencing

Exploring Pan-Genomes: An Overview of Resources and Tools for Unraveling Structure, Function, and Evolution of Crop Genes and Genomes


Portable WDL workflows for IDseq production pipelines

Discovering disease-causing pathogens in resource-scarce Southeast Asia using a global metagenomic pathogen monitoring system

Estimation of secondary household attack rates for emergent SARS-CoV-2 variants detected by genomic surveillance at a community-based testing site in San Francisco

medRxiv : the preprint server for health sciences


A parallel framework for training deep neural networks

AxoNN: An asynchronous, message-driven parallel framework for extreme-scale deep learning

A 4D Hybrid Algorithm to Scale Parallel Training to Thousands of GPUs

A Survey and Empirical Evaluation of Parallel Deep Learning Frameworks


A compressed alternative to the Java BitSet class

Consistently faster and smaller compressed bitmaps with Roaring

Compressed bitmap indexes: beyond unions and intersections

Threshold and Symmetric Functions over Bitmaps

Efficient Offline Monitoring of Linear Temporal Logic with Bit Vectors


R package implementation of Milo for testing for differential abundance in KNN graphs

Cells of the human intestinal tract mapped across space and time

Differential abundance testing on single-cell data using k-nearest neighbor graphs

Milo: differential abundance testing on single-cell data using k-NN graphs

Competition between hematopoietic stem and progenitor cells controls hematopoietic stem cell compartment size

Clinicopathological and predictive value of MAIT cells in non-small cell lung cancer for immunotherapy


a bash pipeline for RAD sequencing

dDocent: a RADseq, variant-calling pipeline designed for population genomics of non-model organisms

Signatures of selection underpinning rapid coral adaptation to the world’s warmest reefs

Genomics of extreme ecological specialists: multiple convergent evolution but no genetic divergence between ecotypes of Maculinea alcon butterflies

A Dense Linkage Map of Lake Victoria Cichlids Improved the Pundamilia Genome Assembly and Revealed a Major QTL for Sex-Determination

Location and Species Matters: Variable Influence of the Environment on the Gene Flow of Imperiled, Native and Invasive Cottontails


DEPRECATED: Open-source software for robot simulation, integrated with OpenAI Gym.

Reward Constrained Policy Optimization

Sample-Efficient Reinforcement Learning with Stochastic Ensemble Value Expansion

Learning symmetric and low-energy locomotion

GPU-Accelerated Robotic Simulation for Distributed Reinforcement Learning

Non-smooth Newton Methods for Deformable Multi-body Dynamics

Regularization Matters in Policy Optimization

Importance Sampling Policy Evaluation with an Estimated Behavior Policy

Balancing Two-Player Stochastic Games with Soft Q-Learning

Structured Control Nets for Deep Reinforcement Learning

ACE: An Actor Ensemble Algorithm for Continuous Control with Tree Search


A Strong and Easy-to-use Single View 3D Hand+Body Pose Estimator

FrankMocap: A Monocular 3D Whole-Body Pose Estimation System via Regression and Integration

FrankMocap: Fast Monocular 3D Hand and Body Motion Capture by Regression and Integration


ChiantiPy is a python package to calculate the radiative properties of astrophysical plasmas based on the CHIANTI atomic database

A Tissue-Engineered Approach to Tendon and Ligament Reconstruction

Modelling thermochemical processes in protoplanetary discs I: numerical methods

Hydrodynamic Atmospheric Escape in HD 189733 b: Signatures of Carbon and Hydrogen Measured with the Hubble Space Telescope

R-matrix electron-impact excitation data for the H- and He-like ions
  with Z=6-30


Woltka: a versatile meta'omic data classifier

Phylogeny-Aware Analysis of Metagenome Community Ecology Based on Matched Reference Genomes while Bypassing Taxonomy

Effects of ‘Healthy’ Fecal Microbiota Transplantation against the Deterioration of Depression in Fawn-Hooded Rats

Evaluation of the Effect of Storage Methods on Fecal, Saliva, and Skin Microbiome Composition

A comparison of DNA/RNA extraction protocols for high-throughput sequencing of microbial communities

Zebra: Static and Dynamic Genome Cover Thresholds with Overlapping References


[CVPR 2020] GAN Compression: Efficient Architectures for Interactive Conditional GANs

Exploring Patch-wise Semantic Relation for Contrastive Learning in Image-to-Image Translation Tasks

Information-Theoretic GAN Compression with Variational Energy-based
  Model


Tools to build deep learning pipelines.

Generalizable biomarker prediction from cancer pathology slides with self-supervised deep learning: A retrospective multi-centric study

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

Fully transformer-based biomarker prediction from colorectal cancer
  histology: a large-scale multicentric study

Regression-based Deep-Learning predicts molecular biomarkers from pathology slides

Direct prediction of Homologous Recombination Deficiency from routine histology in ten different tumor types with attention-based Multiple Instance Learning: a development and validation study

Direct image to subtype prediction for brain tumors using deep learning

Deep learning-based phenotyping reclassifies combined hepatocellular-cholangiocarcinoma


Code to compute permutation and drop-column importances in Python scikit-learn models

Discovery of high-entropy ceramics via machine learning

Early Identification of Seed Maize and Common Maize Production Fields Using Sentinel-2 Images

A weekly, continually updated dataset of the probability of large wildfires across western US forests and woodlands

On the impact of selected modern deep-learning techniques to the performance and celerity of classification models in an experimental high-energy physics use case

Differential modulation of polyunsaturated fatty acids in patients with myocardial infarction treated with ticagrelor or clopidogrel

Automatic classification of deformable shapes


JAFFA is a multi-step pipeline that takes either raw RNA-Seq reads, or pre-assembled transcripts, then searches for gene fusions

Discovering and understanding oncogenic gene fusions through data intensive computational approaches

JAFFA: High sensitivity transcriptome-focused fusion gene detection

Comparative assessment of methods for the fusion transcripts detection from RNA-Seq data

JAFFAL: detecting fusion genes with long-read transcriptome sequencing

FuSpot: a web-based tool for visual evaluation of fusion candidates


:bike: Extract data from public hire bicycle systems


A C++/Python simulator package for reinforcement learning

Interactive Grounded Language Acquisition and Generalization in a 2D World

Guided Feature Transformation (GFT): A Neural Language Grounding Module for Embodied Agents

Listen, Interact and Talk: Learning to Speak via Interaction

Interactive Language Acquisition with One-shot Visual Concept Learning through a Conversational Game


marker-based purification of cell types from single-cell RNA-seq datasets

scGate: marker-based purification of cell types from heterogeneous single-cell RNA-seq datasets

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

The Journal of experimental medicine/The journal of experimental medicine

Transcriptome network analysis implicates CX3CR1-positive type 3 dendritic cells in non-infectious uveitis


A professionally curated list of awesome Conformal Prediction videos, tutorials, books, papers, PhD and MSc theses, articles and open-source libraries.

Introducing Conformal Prediction in Predictive Modeling. A Transparent and Flexible Alternative to Applicability Domain Determination

Journal of chemical information and modeling

Large scale comparison of QSAR and conformal prediction methods and their applications in drug discovery

Efficient iterative virtual screening with Apache Spark and conformal prediction

Conformal prediction to define applicability domain – A case study on predicting ER and AR binding

Inductive conformal prediction for silent speech recognition

Conformal prediction of HDAC inhibitors

Conformal Prediction in Clinical Medical Sciences

Journal of healthcare informatics research

Conformal predictive distributions with kernels

Skin Doctor CP: Conformal Prediction of the Skin Sensitization Potential of Small Organic Molecules

Predicting Amazon customer reviews with deep confidence using deep learning and conformal prediction


An R package for multivariate adaptive shrinkage.

Flexible statistical methods for estimating and testing effects in genomic studies with multiple conditions

Multi-omics colocalization with genome-wide association studies reveals a context-specific genetic mechanism at a childhood onset asthma risk locus

A genome-wide multiphenotypic association analysis identified candidate genes and gene ontology shared by four common risky behaviors

The statistical practice of the GTEx Project: from single to multiple tissues


PySonar2: a semantic indexer for Python with interprocedual type inference

PyART: Python API Recommendation in Real-Time

Static inference meets deep learning

Proceedings of the 44th International Conference on Software Engineering

HiTyper: A Hybrid Static Type Inference Framework with Neural Prediction.


A modular implementation of timely dataflow in Rust

Distributed evaluation of subgraph queries using worst-case optimal low-memory dataflows

Experimental Analysis of Distributed Graph Systems

A Survey and Experimental Analysis of Distributed Subgraph Matching.

DDSL: Efficient Subgraph Listing on Distributed and Dynamic Graphs


A framework for smart contract verification in Coq

ConCert: A Smart Contract Certification Framework in Coq

Extracting smart contracts tested and verified in Coq

Finding smart contract vulnerabilities with ConCert's property-based
  testing framework

Extracting functional programs from Coq, in Coq

Formalising Decentralised Exchanges in Coq


Training models for basecalling Oxford Nanopore reads

Latest techniques to study DNA methylation

Recent advances in the detection of base modifications using the Nanopore sequencer

Nanopore Base Calling on the Edge

Dynamic Pooling Improves Nanopore Base Calling Accuracy


A TensorFlow implementation of Google's Tacotron speech synthesis with pre-trained model (unofficial)

Tacotron: Towards End-to-End Speech Synthesis

A Survey on Neural Speech Synthesis

VoiceLoop: Voice Fitting and Synthesis via a Phonological Loop

Visualization and Interpretation of Latent Spaces for Controlling Expressive Speech Synthesis through Audio Analysis

Towards Natural Bilingual and Code-Switched Speech Synthesis Based on Mix of Monolingual Recordings and Cross-Lingual Voice Conversion

Towards Natural and Controllable Cross-Lingual Voice Conversion Based on Neural TTS Model and Phonetic Posteriorgram

ItôTTS and ItôWave: Linear Stochastic Differential Equation Is All
  You Need For Audio Generation

VITS2: Improving Quality and Efficiency of Single-Stage Text-to-Speech with Adversarial Learning and Architecture Design

ICE-Talk: an Interface for a Controllable Expressive Talking Machine

A Fully Time-domain Neural Model for Subband-based Speech Synthesizer


DriveLM: Driving with Graph Visual Question Answering

DriveGPT4: Interpretable End-to-end Autonomous Driving via Large
  Language Model

Beyond Chain-of-Thought, Effective Graph-of-Thought Reasoning in Large
  Language Models

NuScenes-QA: A Multi-modal Visual Question Answering Benchmark for
  Autonomous Driving Scenario

Language Prompt for Autonomous Driving

Rank2Tell: A Multimodal Driving Dataset for Joint Importance Ranking and
  Reasoning

DriveMLM: Aligning Multi-Modal Large Language Models with Behavioral
  Planning States for Autonomous Driving

LiDAR-LLM: Exploring the Potential of Large Language Models for 3D LiDAR Understanding

LMDrive: Closed-Loop End-to-End Driving with Large Language Models

Human-Centric Autonomous Systems With LLMs for User Command Reasoning


An automatic engine for predicting materials properties.

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

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

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

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

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


Python wrapper for the IBM RXN for Chemistry API

ChemCrow: Augmenting large-language models with chemistry tools

Data-driven molecular design for discovery and synthesis of novel ligands: a case study on SARS-CoV-2

Machine learning: science and technology

Trends in Deep Learning for Property-driven Drug Design.

Targeted design of antiviral compounds against SARS-CoV-2 with conditional generative models


An implementation of CycleGan using TensorFlow

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

Cross-Domain Car Detection Using Unsupervised Image-to-Image Translation: From Day to Night

International Joint Conference on Neural Network

Unsupervised domain adaptation for mobile semantic segmentation based on cycle consistency and feature alignment

Anomaly Generation Using Generative Adversarial Networks in Host-Based Intrusion Detection

Ubiquitous Computing, Electronics & Mobile Communication Conference

Can Synthetic Data Improve Object Detection Results for Remote Sensing Images?

Primary Tumor and Inter-Organ Augmentations for Supervised Lymph Node Colon Adenocarcinoma Metastasis Detection


PASA software

Genomic and transcriptomic variation defines the chromosome-scale assembly of Haemonchus contortus, a model gastrointestinal worm

Phenotype loss is associated with widespread divergence of the gene regulatory landscape in evolution

Chromosome-level genomes of multicellular algal sisters to land plants illuminate signaling network evolution

bioRxiv : the preprint server for biology

A draft genome, resequencing, and metabolomes reveal the genetic background and molecular basis of the nutritional and medicinal properties of loquat (Eriobotrya japonica (Thunb.) Lindl)

The slow-evolving Acorus tatarinowii genome sheds light on ancestral monocot evolution

Patterns of recombination in snakes reveal a tug-of-war between PRDM9 and promoter-like features

The genome and gene editing system of sea barleygrass provide a novel platform for cereal domestication and stress tolerance studies

Chromosome-Level Genome Assembly Provides New Insights into Genome Evolution and Tuberous Root Formation of Potentilla anserina

Genome sequencing of Sitopsis species provides insights into their contribution to the B subgenome of bread wheat

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


PyPop7: A Pure-Python Library for POPulation-based Black-Box Optimization (BBO), especially their *Large-Scale* versions/variants. https://pypop.rtfd.io/

PyPop7: A Pure-Python Library for Population-Based Black-Box
  Optimization

Cooperative Coevolution for Non-Separable Large-Scale Black-Box
  Optimization: Convergence Analyses and Distributed Accelerations


OFFICIAL: AnteChamber PYthon Parser interfacE

ACPYPE update for nonuniform 1-4 scale factors: Conversion of the GLYCAM06 force field from AMBER to GROMACS

Small molecules targeting the disordered transactivation domain of the androgen receptor induce the formation of collapsed helical states

Systematic QM Region Construction in QM/MM Calculations Based on Uncertainty Quantification

Journal of chemical theory and computation

The ACPYPE web server for small-molecule MD topology generation

Stability and Existence of Noncanonical I-motif DNA Structures in Computer Simulations Based on Atomistic and Coarse-Grained Force Fields


A deep learning toolkit specialized for handwritten document analysis

A survey of historical document image datasets

General Models for Handwritten Text Recognition: Feasibility and State-of-the Art. German Kurrent as an Example

End-to-End Page-Level Assessment of Handwritten Text Recognition

Large-scale genealogical information extraction from handwritten Quebec parish records

Open Source Handwritten Text Recognition on Medieval Manuscripts using
  Mixed Models and Document-Specific Finetuning

Key-value information extraction from full handwritten pages

Handwritten Text Recognition from Crowdsourced Annotations


A flexible package for multimodal-deep-learning to combine tabular data with text and images using Wide and Deep models in Pytorch

Revisiting Deep Learning Models for Tabular Data

TabTransformer: Tabular Data Modeling Using Contextual Embeddings

SAINT: Improved Neural Networks for Tabular Data via Row Attention and Contrastive Pre-Training


Violin Plots for Matlab

Deep learning-based kcat prediction enables improved enzyme-constrained model reconstruction

Ex vivo live cell tracking in kidney organoids using light sheet fluorescence microscopy

Multiplexed single-cell profiling of chromatin states at genomic loci by expansion microscopy

Diverse states and stimuli tune olfactory receptor expression levels to modulate food-seeking behavior

Quantifying influence of human choice on the automated detection of Drosophila behavior by a supervised machine learning algorithm

Long-term transverse imaging of the hippocampus with glass microperiscopes

Dynamic fibronectin assembly and remodeling by leader neural crest cells prevents jamming in collective cell migration

Object detection neural network improves Fourier ptychography reconstruction

Visualization of Sugar Content Distribution of White Strawberry by Near-Infrared Hyperspectral Imaging

Neural correlates of affective stimulus evaluation: a case-by-case analysis

Social cognitive and affective neuroscience


Pytorch implementation for Semantic Segmentation/Scene Parsing on MIT ADE20K dataset

Pyramid Scene Parsing Network

Deep High-Resolution Representation Learning for Visual Recognition

Semantic Understanding of Scenes through the ADE20K Dataset

Unified Perceptual Parsing for Scene Understanding

High-Resolution Representations for Labeling Pixels and Regions

MegDet: A Large Mini-Batch Object Detector

Semi-supervised semantic segmentation needs strong, varied perturbations

Indices Matter: Learning to Index for Deep Image Matting

Differentiable Learning-to-Normalize via Switchable Normalization

Diffusion-based Image Translation using Disentangled Style and Content
  Representation


An updated pipeline for pangenome investigation

Producing polished prokaryotic pangenomes with the Panaroo pipeline

Putative Conjugative Plasmids with tcdB and cdtAB Genes in Clostridioides difficile

Genomics of Tenacibaculum Species in British Columbia, Canada

Fluoroquinolone resistance determinants in carbapenem-resistant Escherichia coli isolated from urine clinical samples in Thailand


A Hearthstone: Heroes of WarCraft Simulator for the purposes of Machine Learning and Data Mining

Latent Predictor Networks for Code Generation

Embedding API dependency graph for neural code generation

CodeGen-Test: An Automatic Code Generation Model Integrating Program
  Test Information

Mastering Strategy Card Game (Hearthstone) with Improved Techniques


An Open-source Neural Hierarchical Multi-label Text Classification Toolkit

DCR-Net: A Deep Co-Interactive Relation Network for Joint Dialog Act Recognition and Sentiment Classification

MATCH: Metadata-Aware Text Classification in A Large Hierarchy

Item Tagging for Information Retrieval: A Tripartite Graph Neural Network based Approach

E-ConvRec: A Large-Scale Conversational Recommendation Dataset for E-Commerce Customer Service

LREC 2022: THIRTEEN INTERNATIONAL CONFERENCE ON LANGUAGE RESOURCES AND EVALUATION


An R package for water quality thresholds and index calculation for British Columbia


Gauge-including magnetically induced currents.

Benchmarking Magnetizabilities with Recent Density Functionals

Stabilizing a metalloid {Zn12} unit within a polymetallide environment in [K2Zn20Bi16]6−

Spatial Contributions to Nuclear Magnetic Shieldings

The journal of physical chemistry. A/The journal of physical chemistry. A.

Integration of global ring currents using the Ampère-Maxwell law.

Physical chemistry chemical physics/PCCP. Physical chemistry chemical physics

Magnetic Characterization of the Infinitene Molecule

Current density, current-density pathways, and molecular aromaticity

Spatial Contributions to 1H NMR Chemical Shifts of Free-Base Porphyrinoids

Magnetically Induced Current Densities in Zinc Porphyrin Nanoshells

Computational study of aromaticity, 1H NMR spectra and intermolecular interactions of twisted thia-norhexaphyrin and its multiply annulated polypyrrolic derivatives.

Magnetically Induced Current Densities in π-Conjugated Porphyrin Nanoballs


RAT is an Analysis Tool

Theia: an advanced optical neutrino detector

Sensitivity of a low threshold directional detector to CNO-cycle solar neutrinos

Decisive disappearance search at high Δ m^2 with monoenergetic muon neutrinos

Physical review. D. Particles, fields, gravitation, and cosmology/Physical review. D, Particles, fields, gravitation, and cosmology

Water-based Liquid Scintillator detector as a new technology testbed for neutrino studies in Turkey

Nuclear instruments and methods in physics research. Section A, Accelerators, spectrometers, detectors and associated equipment/Nuclear instruments & methods in physics research. Section A, Accelerators, spectrometers, detectors and associated equipment

Xenon-doped liquid argon TPCs as a neutrinoless double beta decay platform

KPipe: a decisive test for muon neutrino disappearance

Coincidence-based reconstruction for reactor antineutrino detection in gadolinium-doped Cherenkov detectors


An open-source tool to quantify Solar Photovoltaics (PV) Energy and Mass Flows in the Circular Economy, from a Reliability and Lifetime approach

Compendium of photovoltaic degradation rates

PV field reliability status—Analysis of 100 000 solar systems

Benchmarking Utility-Scale PV Operational Expenses and Project Lifetimes: Results from a Survey of U.S. Solar Industry Professionals


A Bayesian inference software package for end-to-end fitting and interpretation of electromagnetic transients

On the diversity of magnetar-driven kilonovae

Monthly notices of the Royal Astronomical Society

1100 days in the life of the supernova 2018ibb -- The best
  pair-instability supernova candidate, to date

Tidal Disruption Events through the Lens of the Cooling Envelope Model

Redback: A Bayesian inference software package for electromagnetic transients


Thermopack is a thermodynamic model library for fluid properties and PVT calculations

Thermodynamic Modeling with Equations of State: Present Challenges with Established Methods

Industrial & engineering chemistry research

Thermodynamic models to accurately describe the PVTxy-behavior of water / carbon dioxide mixtures

The spinodal of single- and multi-component fluids and its role in the development of modern equations of state

Equation of state and force fields for Feynman–Hibbs-corrected Mie fluids. I. Application to pure helium, neon, hydrogen, and deuterium

Thermodynamic properties of the 3D Lennard-Jones/spline model

Equation of state and force fields for Feynman–Hibbs-corrected Mie fluids. II. Application to mixtures of helium, neon, hydrogen, and deuterium

Accurate quantum-corrected cubic equations of state for helium, neon, hydrogen, deuterium and their mixtures

Predicting triggering and consequence of delayed LNG RPT

Journal of loss prevention in the process industries

The influence of CO2 mixture composition and equations of state on simulations of transient pipeline decompression

International journal of greenhouse gas control

Liquid Hydrogen Spills on Water—Risk and Consequences of Rapid Phase Transition


No Coin is a tiny browser extension aiming to block coin miners such as Coinhive.

SoK: Cryptojacking Malware

End-to-End Analysis of In-Browser Cryptojacking

Truth in Web Mining: Measuring the Profitability and Cost of Cryptominers as a Web Monetization Model

CoinPolice:Detecting Hidden Cryptojacking Attacks with Neural Networks

MinerGate: A Novel Generic and Accurate Defense Solution Against Web Based Cryptocurrency Mining Attacks

Communications in computer and information science


:rocket: State-of-the-art parsers for natural language.

Deep Biaffine Attention for Neural Dependency Parsing

Masked Language Modeling and the Distributional Hypothesis: Order Word Matters Pre-training for Little

Simpler but More Accurate Semantic Dependency Parsing

Efficient Second-Order TreeCRF for Neural Dependency Parsing

Investigating Typed Syntactic Dependencies for Targeted Sentiment Classification Using Graph Attention Neural Network

Fast and Accurate Neural CRF Constituency Parsing

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

Second-Order Semantic Dependency Parsing with End-to-End Neural Networks

Pushing on Text Readability Assessment: A Transformer Meets Handcrafted Linguistic Features

BiSyn-GAT+: Bi-Syntax Aware Graph Attention Network for Aspect-based Sentiment Analysis

Findings of the Association for Computational Linguistics: ACL 2022

Substructure Substitution: Structured Data Augmentation for NLP


RANDAO: A DAO working as RNG of Ethereum

A scalable verification solution for blockchains

Astraea: A Decentralized Blockchain Oracle

Probabilistic Smart Contracts: Secure Randomness on the Blockchain

Detecting nondeterministic payment bugs in Ethereum smart contracts

Proceedings of the ACM on programming languages

Machine Learning on Cloud With Blockchain: A Secure, Verifiable and Fair Approach to Outsource the Linear Regression

The State of Ethereum Smart Contracts Security: Vulnerabilities, Countermeasures, and Tool Support

Blockchain Vulnerabilities in Practice

Cryptocurrency Smart Contracts for Distributed Consensus of Public Randomness

Verifiable Computing Applications in Blockchain

Committee Selection in DAG Distributed Ledgers and Applications


Simplest working implementation of Stylegan2, state of the art generative adversarial network, in Pytorch. Enabling everyone to experience disentanglement

Analyzing and Improving the Image Quality of StyleGAN

Efficient Attention: Attention with Linear Complexities

Gradient penalty from a maximum margin perspective

Text-only domain adaptation for end-to-end ASR using integrated text-to-mel-spectrogram generator

Assisting the Adversary to Improve GAN Training

An Empirical Study of the Effects of Sample-Mixing Methods for Efficient Training of Generative Adversarial Networks


⏩ Generating speech in a single forward pass without any attention!

FastPitch: Parallel Text-to-speech with Pitch Prediction

VRAIN-UPV MLLP's system for the Blizzard Challenge 2021

VAKTA-SETU: A Speech-to-Speech Machine Translation Service in Select
  Indic Languages


A framework for composing Neural Processes in Python

Neural Diffusion Processes

Autoregressive Conditional Neural Processes

Environmental sensor placement with convolutional Gaussian neural processes

Sim2Real for Environmental Neural Processes


The entry point to the MRS UAV system.

The MRS UAV System: Pushing the Frontiers of Reproducible Research, Real-world Deployment, and Education with Autonomous Unmanned Aerial Vehicles

Journal of intelligent & robotic systems

MRS Modular UAV Hardware Platforms for Supporting Research in Real-World Outdoor and Indoor Environments

International Conference on Unmanned Aircraft Systems

Gamma Radiation Source Localization for Micro Aerial Vehicles with a Miniature Single-Detector Compton Event Camera

Autonomous cooperative wall building by a team of Unmanned Aerial Vehicles in the MBZIRC 2020 competition

MRS Drone: A Modular Platform for Real-World Deployment of Aerial Multi-Robot Systems

Fusion of Visual-Inertial Odometry with LiDAR Relative Localization for
  Cooperative Guidance of a Micro-Scale Aerial Vehicle

Metaheuristic planner for cooperative multi-agent wall construction with UAVs


PeptideProphet, PTMProphet, ProteinProphet, iProphet, Abacus, and FDR filtering

MSstatsTMT: Statistical Detection of Differentially Abundant Proteins in Experiments with Isobaric Labeling and Multiple Mixtures

Quantitative proteomic landscape of metaplastic breast carcinoma pathological subtypes and their relationship to triple-negative tumors

Fast Proteome Identification and Quantification from Data-Dependent Acquisition–Tandem Mass Spectrometry (DDA MS/MS) Using Free Software Tools

Inner membrane complex proteomics reveals a palmitoylation cascade regulating intraerythrocytic development of malaria parasite

Pan-Cancer Analysis Reveals Recurrent BCAR4 Gene Fusions across Solid Tumors


Copy number calling and variant classification using targeted short read sequencing

Genomic characterization of metastatic breast cancers

Genetic mechanisms of target antigen loss in CAR19 therapy of acute lymphoblastic leukemia

Efficacy of BGJ398, a Fibroblast Growth Factor Receptor 1-3 Inhibitor, in Patients with Previously Treated Advanced Urothelial Carcinoma with FGFR3 Alterations.

Tracking the Evolution of Resistance to ALK Tyrosine Kinase Inhibitors Through Longitudinal Analysis of Circulating Tumor DNA

PureCN: copy number calling and SNV classification using targeted short read sequencing

Characterizing dedifferentiation of thyroid cancer by integrated analysis

Combined PD-1, BRAF and MEK inhibition in advanced BRAF-mutant melanoma: safety run-in and biomarker cohorts of COMBI-i

Characterization of Nigerian breast cancer reveals prevalent homologous recombination deficiency and aggressive molecular features

Cell-free DNA captures tumor heterogeneity and driver alterations in rapid autopsies with pre-treated metastatic cancer

Reliable Analysis of Clinical Tumor-Only Whole-Exome Sequencing Data


a Deep Learning Framework for Text

Delayed Combination of Feature Embedding in Bidirectional LSTM CRF for NER

A Benchmark of PDF Information Extraction Tools Using a Multi-task and Multi-domain Evaluation Framework for Academic Documents

Automatic extraction of materials and properties from superconductors scientific literature

Science and technology of advanced materials. Methods

Amsqr at SemEval-2020 Task 12: Offensive Language Detection Using Neural Networks and Anti-adversarial Features

International Workshop on Semantic Evaluation

The Kairntech Sherpa – An ML Platform and API for the Enrichment of (not only) Scientific Content


A Python library for Secure and Explainable Machine Learning

Technical Report on the CleverHans v2.1.0 Adversarial Examples Library

Foolbox v0.8.0: A Python toolbox to benchmark the robustness of machine learning models

Combining Generators of Adversarial Malware Examples to Increase Evasion Rate


An R    for getting point and gridded climate data by AOI

Pesticide application rates and their toxicological impacts: why do they vary so widely across the U.S.?

Predicting Inundation Dynamics and Hydroperiods of Small, Isolated Wetlands Using a Machine Learning Approach


A python library for Argo data beginners and experts


Efficient, reusable RNNs and LSTMs for torch

The Marginal Value of Adaptive Gradient Methods in Machine Learning

Optimizing Performance of Recurrent Neural Networks on GPUs

Natural Language Statistical Features of LSTM-Generated Texts

IEEE transactions on neural networks and learning systems

Neural Information Retrieval: A Literature Review

Disentangling Adaptive Gradient Methods from Learning Rates

Deep Learning Relevance: Creating Relevant Information (as Opposed to Retrieving it)


OPEM (Open Source PEM Fuel Cell Simulation Tool)


MiniHack the Planet: A Sandbox for Open-Ended Reinforcement Learning Research

Emergent Complexity and Zero-shot Transfer via Unsupervised Environment Design

Evolving Curricula with Regret-Based Environment Design

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

Exploration via Elliptical Episodic Bonuses

Grounding Aleatoric Uncertainty for Unsupervised Environment Design

The Effectiveness of World Models for Continual Reinforcement Learning

Hierarchical Kickstarting for Skill Transfer in Reinforcement Learning

A Study of Global and Episodic Bonuses for Exploration in Contextual
  MDPs

Generalization to New Sequential Decision Making Tasks with In-Context
  Learning


Bidirectional LSTM-CRF and ELMo for Named-Entity Recognition, Part-of-Speech Tagging and so on.

Deep contextualized word representations

Recurrent Neural Network Grammars

Ludwig: a type-based declarative deep learning toolbox

Aspect and Opinion Terms Extraction Using Double Embeddings and Attention Mechanism for Indonesian Hotel Reviews

A Lightweight Recurrent Network for Sequence Modeling

PheneBank: a literature-based database of phenotypes


[DEPRECATED] Security Scanner for Ethereum Smart Contracts

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

International Conference on Software Engineering

Security Analysis Methods on Ethereum Smart Contract Vulnerabilities: A
  Survey

Detecting nondeterministic payment bugs in Ethereum smart contracts

An Analysis of Smart Contracts Security Threats Alongside Existing Solutions

A security framework for Ethereum smart contracts

Turn the Rudder: A Beacon of Reentrancy Detection for Smart Contracts on Ethereum

The Good, The Bad and The Ugly: Pitfalls and Best Practices in Automated Sound Static Analysis of Ethereum Smart Contracts

Leveraging Applications of Formal Methods

HoRStify: Sound Security Analysis of Smart Contracts

Evolution of automated weakness detection in Ethereum bytecode: a comprehensive study


Large-scale Point Cloud Semantic Segmentation with Superpoint Graphs

Point Cloud Oversegmentation with Graph-Structured Deep Metric Learning

Deep Learning on Attributed Graphs: A Journey from Graphs to Their Embeddings and Back.

Supervized Segmentation with Graph-Structured Deep Metric Learning


A collection of papers on the topic of ``Computer Vision in the Wild (CVinW)''

Visual Instruction Tuning

Vision-Language Pre-training: Basics, Recent Advances, and Future Trends

ELEVATER: A Benchmark and Toolkit for Evaluating Language-Augmented
  Visual Models

Multimodal Foundation Models: From Specialists to General-Purpose
  Assistants


:robot: The MoveIt motion planning framework

Towards self-adaptable robots: from programming to training machines

Class-Incremental Gesture Recognition Learning with Out-of-Distribution Detection

CircuitBot: Learning to Survive with Robotic Circuit Drawing


Reference implementation of Mistral AI 7B v0.1 model.

Longformer: The Long-Document Transformer

Generating Long Sequences with Sparse Transformers

Mistral 7B

Mixtral of Experts

A mathematical perspective on Transformers


Fast and customizable text tokenization library with BPE and SentencePiece support

Boosting Neural Machine Translation with Similar Translations

Integrating Domain Terminology into Neural Machine Translation

International Conference on Computational Linguistics

Incorporating External Annotation to improve Named Entity Translation in NMT

European Association for Machine Translation Conferences/Workshops

Priming Neural Machine Translation

HAL (Le Centre pour la Communication Scientifique Directe)

An Overview on Language Models: Recent Developments and Outlook

LIMSI @ WMT 2020

Empirical Methods in Natural Language Processing

The Ubiqus English-Inuktitut System for WMT20

Example-Based Machine Translation from Text to a Hierarchical
  Representation of Sign Language

Collecting domain specific data for MT: an evaluation of the ParaCrawlpipeline

SYSTRAN @ WMT 2021: Terminology Task

Zenodo (CERN European Organization for Nuclear Research)


Code for the AED2 water quality / ecology library

Dynamic modelling provides new insights into development and maintenance of Lake Kivu's density stratification


Python Repository of the Institute of Astronomy @ KU Leuven

Low-frequency gravity waves in blue supergiants revealed by high-precision space photometry

Internal mixing of rotating stars inferred from dipole gravity modes

Contamination in TESS Light Curves: The Case of the Fast Yellow Pulsating Supergiants

Unresolved Rossby and gravity modes in 214 A and F stars showing rotational modulation

Monthly notices of the Royal Astronomical Society


A multi-scale energy systems modelling framework

Dealing with multiple decades of hourly wind and PV time series in energy models: A comparison of methods to reduce time resolution and the planning implications of inter-annual variability

Demand Response Analysis Framework (DRAF): An Open-Source Multi-Objective Decision Support Tool for Decarbonizing Local Multi-Energy Systems

Adequacy of time-series reduction for renewable energy systems


RandLA-Net: Efficient Semantic Segmentation of Large-Scale Point Clouds

SinGAN: Learning a Generative Model from a Single Natural Image

Edge-labeling Graph Neural Network for Few-shot Learning

Contrastive Learning for Compact Single Image Dehazing

Meta-Baseline: Exploring Simple Meta-Learning for Few-Shot Learning

Dynamic Dual-Attentive Aggregation Learning for Visible-Infrared Person Re-Identification

LatticeNet: Towards Lightweight Image Super-Resolution with Lattice Block

Distilling Image Dehazing With Heterogeneous Task Imitation

Perturbed Self-Distillation: Weakly Supervised Large-Scale Point Cloud Semantic Segmentation

International Conference on Computer Vision

Weakly Supervised Semantic Segmentation for Large-Scale Point Cloud


Sustainable Development Goals tracker website


statistical models of forest carbon potential and risks


A MNIST-like fashion product database. Benchmark :point_down:

Fashion-MNIST: a Novel Image Dataset for Benchmarking Machine Learning Algorithms

Client Selection for Federated Learning with Heterogeneous Resources in Mobile Edge

International Conference on Communications

Overcoming catastrophic forgetting with hard attention to the task

Learning from Noisy Labels with Deep Neural Networks: A Survey

Evolving Deep Convolutional Neural Networks for Image Classification

Deep Learning for Classical Japanese Literature

Deep Learning for Case-Based Reasoning through Prototypes: A Neural Network that Explains Its Predictions

Inference Suboptimality in Variational Autoencoders

Federated Learning with Compression: Unified Analysis and Sharp Guarantees

The Anisotropic Noise in Stochastic Gradient Descent: Its Behavior of Escaping from Sharp Minima and Regularization Effects


pytorch-kaldi is a project for developing state-of-the-art DNN/RNN hybrid speech recognition systems. The DNN part is managed by pytorch, while feature extraction, label computation, and decoding are performed with the kaldi toolkit.

The PyTorch-Kaldi Speech Recognition Toolkit

Quaternion Recurrent Neural Networks

Interpretable Convolutional Filters with SincNet

Twin Networks: Matching the Future for Sequence Generation

Kaleidoscope: An Efficient, Learnable Representation For All Structured Linear Maps

Learning to Fool the Speaker Recognition

Bidirectional Quaternion Long-Short Term Memory Recurrent Neural
  Networks for Speech Recognition

Quaternion Neural Networks for Multi-channel Distant Speech Recognition

Speech recognition with quaternion neural networks

Twin Regularization for online speech recognition


Elementary Multiperspective Material Ontology (EMMO)

Semantic Interoperability and Characterization of Data Provenance in Computational Molecular Engineering

Journal of chemical and engineering data/Journal of chemical & engineering data

A Perspective on Digital Knowledge Representation in Materials Science and Engineering

Ontology-Based Process Modelling-with Examples of Physical Topologies

CateCom: A Practical Data-Centric Approach to Categorization of Computational Models

Agent-OM: Leveraging Large Language Models for Ontology Matching

Knowledge Graph Question Answering for Materials Science (KGQA4MAT):
  Developing Natural Language Interface for Metal-Organic Frameworks Knowledge
  Graph (MOF-KG)

Integrating Extended Non-destructive Testing in the Life Cycle Management of Bonded Products—Some Perspectives


A GPU-accelerated TSDF and ESDF library for robots equipped with RGB-D cameras.

Obstacle avoidance using Raycasting and Riemannian Motion Policies at kHz rates for MAVs

Incremental Multimodal Surface Mapping via Self-Organizing Gaussian Mixture Models

Online and Certifiably Correct Visual Odometry and Mapping


The UppASD package is a simulation tool for atomistic spin dynamics and Monte Carlo simulations of Heisenberg spin systems.

Self-induced spin glass state in elemental and crystalline neodymium

Theory of magnon diffuse scattering in scanning transmission electron microscopy

Thermally induced magnetic order from glassiness in elemental neodymium

Spin wave excitations of magnetic metalorganic materials

Skyrmions as quasiparticles: Free energy and entropy

Influence of nonlocal damping on magnon properties of ferromagnets

Unveiling the impact of temperature on magnon diffuse scattering detection in the transmission electron microscope


Toolbox for fNIRS analysis

Frequent, Short Physical Activity Breaks Reduce Prefrontal Cortex Activation but Preserve Working Memory in Middle-Aged Adults: ABBaH Study

ABBaH teens: Activity Breaks for Brain Health in adolescents: study protocol for a randomized crossover trial


Brain signature patterns, atlases of regions, and meta-analysis masks for neuroimaging data analysis.

A neuromarker for drug and food craving distinguishes drug users from non-users

An fMRI-Based Brain Marker of Individual Differences in Delay Discounting

The journal of neuroscience/The Journal of neuroscience

Brain Structural Changes During Juvenile Fibromyalgia: Relationships With Pain, Fatigue, and Functional Disability

Arthritis & rheumatology (Hoboken, N.J.)

Healthcare experience affects pain‐specific responses to others' suffering in the anterior insula

Evoked pain intensity representation is distributed across brain systems: A multistudy mega-analysis

Odor imagery but not perception drives risk for food cue reactivity and increased adiposity

bioRxiv : the preprint server for biology


Python programs for electron microscopy

FACT caught in the act of manipulating the nucleosome

Structure and drug resistance of the Plasmodium falciparum transporter PfCRT

Structural basis for substrate gripping and translocation by the ClpB AAA+ disaggregase

Cryo-EM structures of remodeler-nucleosome intermediates suggest allosteric control through the nucleosome

Cryo-EM analysis of PIP2 regulation in mammalian GIRK channels

Structure and mechanism of B-family DNA polymerase zeta specialized for translesion DNA synthesis

Cryo-EM structure of the potassium-chloride cotransporter KCC4 in lipid nanodiscs

Structure of the radial spoke head and insights into its role in mechanoregulation of ciliary beating

Molecular structures of the eukaryotic retinal importer ABCA4

Structural basis of TRAPPIII‐mediated Rab1 activation


Datasets and tools for basic natural language processing.

Burmese Speech Corpus, Finite-State Text Normalization and Pronunciation Grammars with an Application to Text-to-Speech

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

FonBund: A Library for Combining Cross-lingual Phonological Segment Data

PROCEEDINGS OF THE ELEVENTH INTERNATIONAL CONFERENCE ON LANGUAGE RESOURCES AND EVALUATION (LREC 2018)

Google Crowdsourced Speech Corpora and Related Open-Source Resources for Low-Resource Languages and Dialects: An Overview

Khmer Word Search: Challenges, Solutions, and Semantic-Aware Search


Software that can generate photos from paintings,  turn horses into zebras,  perform style transfer, and more.

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

Image Synthesis with Adversarial Networks: a Comprehensive Survey and
  Case Studies

Harmonic Unpaired Image-to-image Translation

Imperfect ImaGANation: Implications of GANs Exacerbating Biases on Facial Data Augmentation and Snapchat Selfie Lenses

Virtualization of tissue staining in digital pathology using an unsupervised deep learning approach

Cycle-Consistent Counterfactuals by Latent Transformations

Investigating the Performance of Generative Adversarial Networks for Prostate Tissue Detection and Segmentation

AR-NeRF: Unsupervised Learning of Depth and Defocus Effects from Natural Images with Aperture Rendering Neural Radiance Fields

TTIDA: Controllable Generative Data Augmentation via Text-to-Text and
  Text-to-Image Models

Unsupervised Adversarial Visual Level Domain Adaptation for Learning Video Object Detectors from Images


The General Game Playing Base Package

Ludii -- The Ludemic General Game System

Ludii as a Competition Platform

An Empirical Evaluation of Two General Game Systems: Ludii and RBG


Open MatSci ML Toolkit is a framework for prototyping and scaling out deep learning models for materials discovery supporting widely used materials science datasets, and built on top of PyTorch Lightning, the Deep Graph Library, and PyTorch Geometric.

Directional Message Passing for Molecular Graphs

Towards Training Billion Parameter Graph Neural Networks for Atomic
  Simulations

The Open MatSci ML Toolkit: A Flexible Framework for Machine Learning in
  Materials Science

Deep Graph Library Optimizations for Intel(R) x86 Architecture

MatSciML: A Broad, Multi-Task Benchmark for Solid-State Materials
  Modeling


Beautiful visualizations of how language differs among document types.

Scattertext: a Browser-Based Tool for Visualizing how Corpora Differ

Generalized word shift graphs: a method for visualizing and explaining pairwise comparisons between texts

Evaluation of Automatic Speech Recognition for Conversational Speech in Dutch, English and German: What Goes Missing?

Conference on Natural Language Processing

Predicting gender and age categories in English conversations using lexical, non-lexical, and turn-taking features

From alternative conceptions of honesty to alternative facts in communications by US politicians


A minimap2 frontend for PacBio native data formats

Long-read-based human genomic structural variation detection with cuteSV

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

Split-alignment of genomes finds orthologies more accurately

Complete vertebrate mitogenomes reveal widespread repeats and gene duplications

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

Single individual structural variant detection uncovers widespread hemizygosity in molluscs


Latex code for making neural networks diagrams

On Circuit-Based Hybrid Quantum Neural Networks for Remote Sensing Imagery Classification

CNN-Based Tree Species Classification Using High Resolution RGB Image Data from Automated UAV Observations

Robotic Table Tennis with Model-Free Reinforcement Learning

Prediction of wall-bounded turbulence from wall quantities using convolutional neural networks

Radial Basis Function Networks for Convolutional Neural Networks to Learn Similarity Distance Metric and Improve Interpretability

FN-OCT: Disease Detection Algorithm for Retinal Optical Coherence Tomography Based on a Fusion Network

Deep Complex Networks for Protocol-Agnostic Radio Frequency Device Fingerprinting in the Wild

deepBlink: threshold-independent detection and localization of diffraction-limited spots

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

Reconstructing patchy reionization with deep learning


Location Privacy Preservation in Database-Driven Wireless Cognitive Networks Through Encrypted Probabilistic Data Structures

IEEE transactions on cognitive communications and networking/IEEE Transactions on Cognitive Communications and Networking

An Overview of Cryptographic Accumulators

International Conference on Information Systems Security and Privacy

Binary Fuse Filters: Fast and Smaller Than Xor Filters

ACM journal of experimental algorithmics

Proof of Unlearning: Definitions and Instantiation

Adversarial Correctness and Privacy for Probabilistic Data Structures

Quotient hash tables

SAC '19: PROCEEDINGS OF THE 34TH ACM/SIGAPP SYMPOSIUM ON APPLIED COMPUTING

bloomRF: On Performing Range-Queries in Bloom-Filters with
  Piecewise-Monotone Hash Functions and Prefix Hashing


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

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

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

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

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

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


The Medical Image Registration ToolKit (MIRTK), the successor of the IRTK, contains common CMake build configuration files, core libraries, and basic command-line tools. Extension packages are hosted by the MIRTK GitHub group at

Joint Learning of Motion Estimation and Segmentation for Cardiac MR Image Sequences

Structural brain imaging in Alzheimer’s disease and mild cognitive impairment: biomarker analysis and shared morphometry database

Universal atrial coordinates applied to visualisation, registration and construction of patient specific meshes.

Deformable Slice-to-Volume Registration for Motion Correction of Fetal Body and Placenta MRI

PVR: Patch-to-Volume Reconstruction for Large Area Motion Correction of Fetal MRI

Parcellation of the neonatal cortex using Surface-based Melbourne Children’s Regional Infant Brain atlases (M-CRIB-S)

Automatic Segmentation of White Matter Hyperintensities from Brain Magnetic Resonance Images in the Era of Deep Learning and Big Data – A Systematic Review

Computerized medical imaging and graphics : the official journal of the Computerized Medical Imaging Society

Joint Motion Estimation and Segmentation from Undersampled Cardiac MR Image

Machine Learning for Medical Image Reconstruction

Fully Automatic Atrial Fibrosis Assessment Using a Multilabel Convolutional Neural Network

Multiparametric cerebellar imaging and clinical phenotype in childhood ataxia telangiectasia


QML: Quantum Machine Learning

Machine Learning Force Fields

Data‐Driven Materials Science: Status, Challenges, and Perspectives

Machine Learning for Electronically Excited States of Molecules

FCHL revisited: Faster and more accurate quantum machine learning

Non-covalent interactions across organic and biological subsets of chemical space: Physics-based potentials parametrized from machine learning

Operators in Machine Learning: Response Properties in Chemical Space

On the role of gradients for machine learning of molecular energies and forces

IMPRESSION – prediction of NMR parameters for 3-dimensional chemical structures using machine learning with near quantum chemical accuracy

Machine learning based energy-free structure predictions of molecules, transition states, and solids

Machine learning and excited-state molecular dynamics

Machine learning: science and technology


mT5: A massively multilingual pre-trained text-to-text transformer

Towards Tracing Factual Knowledge in Language Models Back to the
  Training Data

Spotlight: Mobile UI Understanding using Vision-Language Models with a
  Focus

Bidirectional Language Models Are Also Few-shot Learners

Decoupled Context Processing for Context Augmented Language Modeling

ERNIE-Code: Beyond English-Centric Cross-lingual Pretraining for Programming Languages

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

Learning Translation Quality Evaluation on Low Resource Languages from
  Large Language Models


Python package for process-oriented climate modeling


TorchCFM: a Conditional Flow Matching library

Improving and generalizing flow-based generative models with minibatch
  optimal transport

Diffusion Schrödinger Bridge Matching

Simulation-free Schrödinger bridges via score and flow matching

On the Stability of Iterative Retraining of Generative Models on their
  own Data

Generating and Imputing Tabular Data via Diffusion and Flow-based
  Gradient-Boosted Trees

Neural Sinkhorn Gradient Flow


An interactional aerodynamics and acoustics solver for multirotor aircraft and wind energy

High-Fidelity Modeling of Multirotor Aerodynamic Interactions for Aircraft Design

Modeling Multirotor Aerodynamic Interactions Through the Vortex Particle Method

Development of a Vortex Particle Code for the Modeling of Wake Interaction in Distributed Propulsion

On the Scope of Lagrangian Vortex Methods for Two-Dimensional Flow Simulations and the POD Technique Application for Data Storing and Analyzing


:zap: :aquarius: Rapid prokaryotic genome annotation

MOB-suite: software tools for clustering, reconstruction and typing of plasmids from draft assemblies

Cooperative Recognition of Internationally Disseminated Ceftriaxone-Resistant Neisseria gonorrhoeae Strain

Rapid evolution of bacterial mutualism in the plant rhizosphere

INSaFLU: an automated open web-based bioinformatics suite “from-reads” for influenza whole-genome-sequencing-based surveillance

Brasilianoids A–F, New Meroterpenoids From the Sponge-Associated Fungus Penicillium brasilianum

The changing landscape of vancomycin-resistant Enterococcus faecium in Australia: a population-level genomic study

The journal of antimicrobial chemotherapy/Journal of antimicrobial chemotherapy

Prospective study on human fecal carriage of Enterobacteriaceae possessing mcr-1 and mcr-2 genes in a regional hospital in Hong Kong

Beneficial Chromosomal Integration of the Genes for CTX-M Extended-Spectrum beta-Lactamase in Klebsiella pneumoniae for Stable Propagation

Synergy and oxygen adaptation for development of next-generation probiotics

Composition and Diversity of CRISPR-Cas13a Systems in the Genus Leptotrichia


LoRA: Low-Rank Adaptation of Large Language Models

QLoRA: Efficient Finetuning of Quantized LLMs

How Far Can Camels Go? Exploring the State of Instruction Tuning on Open
  Resources

Instruction Tuning for Large Language Models: A Survey

Camels in a Changing Climate: Enhancing LM Adaptation with Tulu 2

Lemur: Harmonizing Natural Language and Code for Language Agents

OLMo: Accelerating the Science of Language Models

#InsTag: Instruction Tagging for Analyzing Supervised Fine-tuning of
  Large Language Models

Fine-grained Hallucination Detection and Editing for Language Models

Investigating Data Contamination for Pre-training Language Models


Formal to Formal Mathematics Benchmark

Measuring Mathematical Problem Solving With the MATH Dataset

Draft, Sketch, and Prove: Guiding Formal Theorem Provers with Informal
  Proofs

Formal Mathematics Statement Curriculum Learning

MiniF2F: a cross-system benchmark for formal Olympiad-level mathematics

HyperTree Proof Search for Neural Theorem Proving

Magnushammer: A Transformer-based Approach to Premise Selection

InternLM-Math: Open Math Large Language Models Toward Verifiable
  Reasoning


Climate data for ForestGEO sites

Warm springs alter timing but not total growth of temperate deciduous trees


QCD for Intel Xeon Phi and Xeon processors

Integrated Pest Management of Western Flower Thrips

Λ_c →Λ^*(1520) form factors from lattice QCD and improved analysis of the Λ_b →Λ^*(1520) and Λ_b →Λ_c^*(2595,2625) form factors

Λ b → Λ c * ( 2595 , 2625 ) ℓ − ν ¯ form factors from lattice QCD

Angular distributions for Λ_b→Λ^*_J (pK^-)J/ψ Decays

Twisted mass gauge ensembles at physical values of the light, strange
  and charm quark masses

Practical Implementation of Lattice QCD Simulation on Intel Xeon Phi Knights Landing

Twisted mass ensemble generation on GPU machines

Accelerating Twisted Mass LQCD with QPhiX

Optimizing shift selection in multilevel Monte Carlo for disconnected diagrams in lattice QCD

Gradient flow scale-setting with N_f=2+1+1 Wilson-clover twisted-mass
  fermions


Epistemic Neural Networks

Ensembles for Uncertainty Estimation: Benefits of Prior Functions and
  Bootstrapping

Fine-Tuning Language Models via Epistemic Neural Networks

Robustness of Epinets against Distributional Shifts

Layer Ensembles


ELF: a platform for game research with AlphaGoZero/AlphaZero reimplementation

Deep Reinforcement Learning

Playing the lottery with rewards and multiple languages: lottery tickets in RL and NLP

ELF OpenGo: An Analysis and Open Reimplementation of AlphaZero

Conditionally Elicitable Dynamic Risk Measures for Deep Reinforcement Learning

Practical Massively Parallel Monte-Carlo Tree Search Applied to Molecular Design

Deep Pepper: Expert Iteration based Chess agent in the Reinforcement Learning Setting

Practical Large-Scale Distributed Parallel Monte-Carlo Tree Search Applied to Molecular Design.

Artificial Intelligence for Games


CityGML Energy ADE


A random forest

High-Dimensional Materials and Process Optimization Using Data-Driven Experimental Design with Well-Calibrated Uncertainty Estimates

Integrating materials and manufacturing innovation

Overcoming data scarcity with transfer learning

The Materials Simulation Toolkit for Machine learning (MAST-ML): An automated open source toolkit to accelerate data-driven materials research

Uncertainty-Aware Mixed-Variable Machine Learning for Materials Design

By how much can closed-loop frameworks accelerate computational materials discovery?


The Highly Adaptive Lasso

Causal mediation analysis for stochastic interventions

Journal of the Royal Statistical Society. Series B, Statistical methodology

hal9001: Scalable highly adaptive lasso regression in R

Doubly Robust Adaptive LASSO for Effect Modifier Discovery

The international journal of biostatistics

Semi-Parametric Identification and Estimation of Interaction and Effect
  Modification in Mixed Exposures using Stochastic Interventions


Ultra-fast and memory-efficient (meta-)genome assembler

MEGAHIT: An ultra-fast single-node solution for large and complex
  metagenomics assembly via succinct de Bruijn graph

Multi-omics reveals that the rumen microbiome and its metabolome together with the host metabolome contribute to individualized dairy cow performance

Metagenome-wide association study of gut microbiome revealed novel aetiology of rheumatoid arthritis in the Japanese population

A review of computational tools for generating metagenome-assembled genomes from metagenomic sequencing data

Two novel venom proteins underlie divergent parasitic strategies between a generalist and a specialist parasite

Terabase-scale metagenome coassembly with MetaHipMer

Exploring the Possible Link between the Gut Microbiome and Fat Deposition in Pigs

Oxidative medicine and cellular longevity

Metagenomic Analysis of Antibiotic Resistance Genes in Untreated Wastewater From Three Different Hospitals

Identification of Multigene Biomarker for Shrimp White Feces Syndrome by Full-Length Transcriptome Sequencing

Characteristics of Microbial Community and Function With the Succession of Mangroves


P2P communication library for Android

Web3: A Decentralized Societal Infrastructure for Identity, Trust,
  Money, and Data

Distributed Attestation Revocation in Self-Sovereign Identity


Efficient Inference for Big Models

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

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

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

BMInf: An Efficient Toolkit for Big Model Inference and Tuning

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

Understanding LLMs: A Comprehensive Overview from Training to Inference


Pipelines for the analysis of 10x single-cell RNA-sequencing data

The Short Chain Fatty Acid Butyrate Imprints an Antimicrobial Program in Macrophages

Distinct fibroblast subsets drive inflammation and damage in arthritis

A blood atlas of COVID-19 defines hallmarks of disease severity and specificity

dropEst: pipeline for accurate estimation of molecular counts in droplet-based single-cell RNA-seq experiments

Secondary influenza challenge triggers resident memory B cell migration and rapid relocation to boost antibody secretion at infected sites


Semantic Parser with Execution

Compositional Semantic Parsing on Semi-Structured Tables

Sequence-based Structured Prediction for Semantic Parsing

Proceedings of the 54th Annual Meeting of the Association for Computational Linguistics (Volume 1: Long Papers)

Improving Semantic Parsing via Answer Type Inference

Empirical Methods in Natural Language Processing

Inferring Logical Forms From Denotations

Macro Grammars and Holistic Triggering for Efficient Semantic Parsing

ReTraCk: A Flexible and Efficient Framework for Knowledge Base Question Answering

Unsupervised Dual Paraphrasing for Two-stage Semantic Parsing

Paraphrase Generation from Latent-Variable PCFGs for Semantic Parsing

On The Ingredients of an Effective Zero-shot Semantic Parser

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


A distributed graph deep learning framework.

Graph Neural Networks: A Review of Methods and Applications

Deep Learning on Graphs: A Survey

Deep Graph Library: A Graph-Centric, Highly-Performant Package for Graph
  Neural Networks

Deep Graph Library: Towards Efficient and Scalable Deep Learning on Graphs

HyGCN: A GCN Accelerator with Hybrid Architecture

DistDGL: Distributed Graph Neural Network Training for Billion-Scale Graphs

IntentGC: a Scalable Graph Convolution Framework Fusing Heterogeneous Information for Recommendation

EnGN: A High-Throughput and Energy-Efficient Accelerator for Large Graph Neural Networks

Automated Machine Learning on Graphs: A Survey

Graph Intention Network for Click-through Rate Prediction in Sponsored Search


A collection of common functionality to simplify the design, training and evaluation of machine learning models based on pytorch with an emphasis on speech processing.

Dual-path RNN: efficient long sequence modeling for time-domain single-channel speech separation

ESPnet-se: end-to-end speech enhancement and separation toolkit designed for asr integration

Speaker activity driven neural speech extraction


AquaCrop-OSPy: Python implementation of AquaCrop-OS

AquaCrop-OS: An open source version of FAO's crop water productivity model

AquaCrop-OSPy: Bridging the gap between research and practice in crop-water modeling


A statistics and context decoding toolbox for neuroimaging.

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

Heritability of hippocampal functional and microstructural organisation

Whole‐brain functional gradients reveal cortical and subcortical alterations in patients with episodic migraine


百亿参数的中英文双语基座大模型

Evaluating Large Language Models for Radiology Natural Language Processing

Qilin-Med-VL: Towards Chinese Large Vision-Language Model for General
  Healthcare

Decoder Tuning: Efficient Language Understanding as Decoding


Sionna: An Open-Source Library for Next-Generation Physical Layer Research

Deep Learning Methods for Improved Decoding of Linear Codes

IEEE journal of selected topics in signal processing

Learning to Decode Linear Codes Using Deep Learning

Semantic Communications with Variable-Length Coding for Extended Reality

Improved Nonlinear Transform Source-Channel Coding to Catalyze Semantic Communications


Kakao Hangul Analyzer III

Captivate! Contextual Language Guidance for Parent–Child Interaction

PROCEEDINGS OF THE 2022 CHI CONFERENCE ON HUMAN FACTORS IN COMPUTING SYSTEMS (CHI' 22)

Korean Morphological Analysis with Tied Sequence-to-Sequence Multi-Task Model

OpenKorPOS: Democratizing Korean Tokenization with Voting-Based Open Corpus Annotation

LREC 2022: THIRTEEN INTERNATIONAL CONFERENCE ON LANGUAGE RESOURCES AND EVALUATION

Guidance to Pre-tokeniztion for SacreBLEU: Meta-Evaluation in Korean

A Computational Approach to Measure Empathy and Theory-of-Mind from Written Texts

Introducing Patents with Indirect Connection (PIC) for Establishing Patent Strategies

Vacillating Human Correlation of SacreBLEU in Unprotected Languages

Proceedings of the 2nd Workshop on Human Evaluation of NLP Systems (HumEval)