Research release basecalling models and configurations

DNA methylation-calling tools for Oxford Nanopore sequencing: a survey and human epigenome-wide evaluation

Symphonizing pileup and full-alignment for deep learning-based long-read variant calling

Impact of lossy compression of nanopore raw signal data on basecalling and consensus accuracy

Distinguishing between recruitment and spread of silent chromatin structures in Saccharomyces cerevisiae

DeepMP: a deep learning tool to detect DNA base modifications on Nanopore sequencing data

Comprehensive Analysis of DNA 5-Methylcytosine and N6-Adenine Methylation by Nanopore Sequencing in Hepatocellular Carcinoma

Frontiers in cell and developmental biology

DNA Methylation Patterns Differ between Free-Living Rhizobium leguminosarum RCAM1026 and Bacteroids Formed in Symbiosis with Pea (Pisum sativum L.)

Multidrug-Resistant Shigella sonnei Bacteremia among Persons Experiencing Homelessness, Vancouver, British Columbia, Canada


C++17 Library for analysis, compilation/synthesis, and optimization of quantum circuits

An Open-Source, Industrial-Strength Optimizing Compiler for Quantum Programs

Automatic generation of Grover quantum oracles for arbitrary data structures

Using ZDDs in the Mapping of Quantum Circuits

Optimizing quantum circuit synthesis for permutations using recursion


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

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

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

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

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


Python package for easy access to weather and climate data


Reading Wikipedia to Answer Open-Domain Questions

BERT Post-Training for Review Reading Comprehension and Aspect-based Sentiment Analysis

Open Question Answering over Tables and Text

Open-Retrieval Conversational Question Answering

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

GLUECoS : An Evaluation Benchmark for Code-Switched NLP

Ranking Paragraphs for Improving Answer Recall in Open-Domain Question Answering

Differentiable Reasoning over a Virtual Knowledge Base

SberQuAD - Russian Reading Comprehension Dataset: Description and Analysis

Answering Open-Domain Questions of Varying Reasoning Steps from Text

Training a Ranking Function for Open-Domain Question Answering


fitlog是一款在深度学习训练中用于辅助用户记录日志和管理代码的工具

A Unified Generative Framework for Various NER Subtasks

A Unified Generative Framework for Aspect-Based Sentiment Analysis

UTC-IE: A Unified Token-pair Classification Architecture for Information Extraction

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


TransferAttack is a pytorch framework to boost the adversarial transferability for image classification.

Explaining and Harnessing Adversarial Examples

Adversarial examples in the physical world

Boosting Adversarial Attacks with Momentum

Improving Transferability of Adversarial Examples with Input Diversity

Evading Defenses to Transferable Adversarial Examples by Translation-Invariant Attacks

Nesterov Accelerated Gradient and Scale Invariance for Adversarial Attacks

Enhancing the Transferability of Adversarial Attacks through Variance Tuning

Skip Connections Matter: On the Transferability of Adversarial Examples Generated with ResNets

Enhancing Adversarial Example Transferability with an Intermediate Level Attack

Feature Importance-aware Transferable Adversarial Attacks


fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing

Mosdepth: quick coverage calculation for genomes and exomes

Genomic and transcriptomic characterization of delta SARS-CoV-2 infection in free-ranging white-tailed deer (Odocoileus virginianus)

A paternal bias in germline mutation is widespread in amniotes and can arise independently of cell division numbers

Rapid and comprehensive diagnostic method for repeat expansion diseases using nanopore sequencing

Identification of Copy Number Variation in Domestic Chicken Using Whole-Genome Sequencing Reveals Evidence of Selection in the Genome

Animals : an open access journal from MDPI

A highly contiguous genome assembly reveals sources of genomic novelty in the symbiotic fungusRhizophagus irregularis

A Computational Framework for Comprehensive Genomic Profiling in Solid Cancers: The Analytical Performance of a High-Throughput Assay for Small and Copy Number Variants


Peptide-MHC I binding affinity prediction

NetMHCpan-4.1 and NetMHCIIpan-4.0: improved predictions of MHC antigen presentation by concurrent motif deconvolution and integration of MS MHC eluted ligand data

MHCflurry: open-source class I MHC binding affinity prediction

MHCflurry 2.0: Improved Pan-Allele Prediction of MHC Class I-Presented Peptides by Incorporating Antigen Processing

Predicting Antigen Presentation—What Could We Learn From a Million Peptides?

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

DeepLigand: accurate prediction of MHC class I ligands using peptide embedding

An omic and multidimensional spatial atlas from serial biopsies of an evolving metastatic breast cancer

Characterization of SARS-CoV-2 viral diversity within and across hosts

Computational cancer neoantigen prediction: current status and recent advances

Predicting Peptide-MHC Binding Affinities with Imputed Training Data


Knee point detection in Python :chart_with_upwards_trend:

Finding a "Kneedle" in a Haystack: Detecting Knee Points in System Behavior

International Conference on Distributed Computing Systems Workshops

Explainable AI reveals changes in skin microbiome composition linked to phenotypic differences

e-space (Manchester Metropolitan University)

Use of Very High-Resolution Optical Data for Landslide Mapping and Susceptibility Analysis along the Karnali Highway, Nepal

Evaluating generative networks using Gaussian mixtures of image features

Interpretable Summaries of Black Box Incident Triaging with Subgroup Discovery

Multipolar Atom Types from Theory and Statistical Clustering (MATTS) Data Bank: Impact of Surrounding Atoms on Electron Density from Cluster Analysis

Journal of chemical information and modeling

Distances to Nearby Molecular Clouds Traced by Young Stars

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

Long-read-based single sperm genome sequencing for chromosome-wide haplotype phasing of both SNPs and SVs

Zenodo (CERN European Organization for Nuclear Research)


A random SQL query generator

SQUIRREL: Testing Database Management Systems with Language Validity and Coverage Feedback

Detecting optimization bugs in database engines via non-optimizing reference engine construction

PROCEEDINGS OF THE 28TH ACM JOINT MEETING ON EUROPEAN SOFTWARE ENGINEERING CONFERENCE AND SYMPOSIUM ON THE FOUNDATIONS OF SOFTWARE ENGINEERING (ESEC/FSE '20)

Finding bugs in database systems via query partitioning

Proceedings of the ACM on programming languages

On the Unusual Effectiveness of Type-aware Mutations for Testing SMT Solvers

Industry Practice of Coverage-Guided Enterprise-Level DBMS Fuzzing

Data-Oriented Differential Testing of Object-Relational Mapping Systems

Testing Very Large Database Management Systems: The Case of SAP HANA

Testing Database Engines via Query Plan Guidance

PerfCE: Performance Debugging on Databases with Chaos
  Engineering-Enhanced Causality Analysis

Testing DBMS Performance with Mutations


Natural Language Toolkit for Malaysian language, https://malaya.readthedocs.io/

Pre-training Polish Transformer-based Language Models at Scale

Sentiment analysis of informal Malay tweets with deep learning

IAES International Journal of Artificial Intelligence (IJ-AI)

Large Malaysian Language Model Based on Mistral for Enhanced Local
  Language Understanding

COOL, a Context Outlooker, and its Application to Question Answering and
  other Natural Language Processing Tasks


A toolbox for comparing brain maps

Mapping neurotransmitter systems to the structural and functional organization of the human neocortex

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

Revealing the neurobiology underlying interpersonal neural synchronization with multimodal data fusion

Three components of human brain gene expression reflect normative developmental programmes with specific links to neurodevelopmental disorders


Evolving modular soft robots without explicit inter-module communication using local self-attention

Proceedings of the Genetic and Evolutionary Computation Conference

Evolving Hebbian Learning Rules in Voxel-Based Soft Robots

IEEE transactions on cognitive and developmental systems

Criticality-Driven Evolution of Adaptable Morphologies of Voxel-Based Soft-Robots

Mining Road Traffic Rules with Signal Temporal Logic and Grammar-Based Genetic Programming


Get and reproduce data from the Propensity to Cycle Tool (PCT)


Statistics for MINC volumes: A library to integrate voxel-based statistics for MINC volumes into the R environment. Supports getting and writing of MINC volumes, running voxel-wise linear models, correlations, etc.; correcting for multiple comparisons using the False Discovery Rate, and more. With contributions from Jason Lerch, Chris Hammill, Jim Nikelski and Matthijs van Eede. Some additional information can be found here:

[18F]FDG PET signal is driven by astroglial glutamate transport

Subcortical Shape Changes, Hippocampal Atrophy and Cortical Thinning in Future Alzheimer's Disease Patients

Neuroanatomical and Symptomatic Sex Differences in Individuals at Clinical High Risk for Psychosis

Personality disorder symptomatology is associated with anomalies in striatal and prefrontal morphology

Bilateral Amygdala Radio-Frequency Ablation for Refractory Aggressive Behavior Alters Local Cortical Thickness to a Pattern Found in Non-refractory Patients

超量服用复方氨酚烷胺片引起昏睡、心律失常、血压升高1例

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

MusMorph, a database of standardized mouse morphology data for morphometric meta-analyses

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

Cumulative exposure to ADHD medication is inversely related to hippocampus subregional volume in children


The Semantic Reader Project: Augmenting Scholarly Documents through
  AI-Powered Interactive Reading Interfaces

Qlarify: Bridging Scholarly Abstracts and Papers with Recursively
  Expandable Summaries

Papeos: Augmenting Research Papers with Talk Videos

Proceedings of the 36th Annual ACM Symposium on User Interface Software and Technology


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

ASER: A Large-scale Eventuality Knowledge Graph

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

A Comprehensive Survey on Automatic Knowledge Graph Construction


Basic Tensor Algebra Subroutines

Tensor Contractions with Extended BLAS Kernels on CPU and GPU

PROCEEDINGS OF 2016 IEEE 23RD INTERNATIONAL CONFERENCE ON HIGH PERFORMANCE COMPUTING (HIPC)

Reliably assessing the electronic structure of cytochrome P450 on
  today's classical computers and tomorrow's quantum computers

Robust approximation of tensor networks: application to grid-free tensor
  factorization of the Coulomb interaction

Efficient Construction of Canonical Polyadic Approximations of Tensor Networks


ROR API

The evolving role of preprints in the dissemination of COVID-19 research and their impact on the science communication landscape

Preprinting the COVID-19 pandemic

Establishing Institutional Scores With the Rigor and Transparency Index: Large-scale Analysis of Scientific Reporting Quality

How Does Author Affiliation Affect Preprint Citation Count? Analyzing Citation Bias at the Institution and Country Level

Proceedings of the 22nd ACM/IEEE Joint Conference on Digital Libraries


Il costo dei figli in termini di tempo: differenze di genere e differenze territoriali in Italia.

Automated Change Rule Inference for Distance-Based API Misuse Detection

An Experimental Analysis of Graph-Distance Algorithms for Comparing API Usages


Download data from the Oregon PRISM climate data project http://www.prism.oregonstate.edu/

Comparison of large-scale citizen science data and long-term study data for phenology modeling

Automated data-intensive forecasting of plant phenology throughout the United States

The role of warm, dry summers and variation in snowpack on phytoplankton dynamics in mountain lakes

Semiparametric panel data models using neural networks


Atomistica is a library of interatomic potentials that is compatible with ASE and LAMMPS

Machine Learning a General-Purpose Interatomic Potential for Silicon

Humidity-dependent lubrication of highly loaded contacts by graphite and a structural transition to turbostratic carbon

Solid-Phase Silicon Homoepitaxy via Shear-Induced Amorphization and Recrystallization

Comprehensive structural changes in nanoscale-deformed silicon modelled with an integrated atomic potential


An open-source microcontroller system based on RISC-V

LO-FAT: Low-Overhead Control Flow ATtestation in Hardware

PROCEEDINGS OF THE 2017 54TH ACM/EDAC/IEEE DESIGN AUTOMATION CONFERENCE (DAC)

RISQ-V: Tightly Coupled RISC-V Accelerators for Post-Quantum Cryptography

IACR transactions on cryptographic hardware and embedded systems

Sponge-Based Control-Flow Protection for IoT Devices

Pointing in the Right Direction - Securing Memory Accesses in a Faulty World

Asia-Pacific Computer Systems Architecture Conference

A Pragmatic Methodology for Blind Hardware Trojan Insertion in Finalized Layouts

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


Prototype flexible hierarchical multi-instance learning models.

Using Neural Network Formalism to Solve Multiple-Instance Problems

Discriminative models for multi-instance problems with tree-structure

Nested Multiple Instance Learning in Modelling of HTTP network traffic.

Mill.jl and JsonGrinder.jl: automated differentiable feature extraction
  for learning from raw JSON data


Source code for the LabelMe annotation tool.

Thermal Infrared Image Colorization for Nighttime Driving Scenes With Top-Down Guided Attention

Ship Detection under Complex Backgrounds Based on Accurate Rotated Anchor Boxes from Paired Semantic Segmentation

RT-Seg: A Real-Time Semantic Segmentation Network for Side-Scan Sonar Images

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

A Cascaded Model Based on EfficientDet and YOLACT++ for Instance Segmentation of Cow Collar ID Tag in an Image

Deep Learning on Ultrasound Images Visualizes the Femoral Nerve with Good Precision

Developing a Free and Open-Source Semi-Automated Building Exterior Crack Inspection Software for Construction and Facility Managers

Video-based Smoky Vehicle Detection with A Coarse-to-Fine Framework

Nighttime Thermal Infrared Image Colorization with Feedback-based Object Appearance Learning


A toolbox for integrated information theory.

Can the macro beat the micro? Integrated information across spatiotemporal scales

PyPhi: A toolbox for integrated information theory

What caused what? A quantitative account of actual causation using
  dynamical causal networks

Computing Integrated Information (Φ) in Discrete Dynamical Systems with Multi-Valued Elements

Emergence of Integrated Information at Macro Timescales in Real Neural Recordings

Upper bounds for integrated information


Performance tests for Apache Spark

MLlib: Machine Learning in Apache Spark

Arrow: Low-Level Augmented Bayesian Optimization for Finding the Best Cloud VM

International Conference on Distributed Computing Systems

Improving Spark Application Throughput Via Memory Aware Task Co-location: A Mixture of Experts Approach

Decision Stream: Cultivating Deep Decision Trees

Lynceus: Cost-efficient Tuning and Provisioning of Data Analytic Jobs

No Delay: Latency-Driven, Application Performance-Aware, Cluster Scheduling

Karasu: A Collaborative Approach to Efficient Cluster Configuration for Big Data Analytics


Alpaca dataset from Stanford, cleaned and curated

AlpaGasus: Training A Better Alpaca with Fewer Data

Monolingual or Multilingual Instruction Tuning: Which Makes a Better
  Alpaca

From Zero to Hero: Examining the Power of Symbolic Tasks in Instruction
  Tuning

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

CoachLM: Automatic Instruction Revisions Improve the Data Quality in LLM Instruction Tuning


A probabilistic programming system for simulators and high-performance computing (HPC), based on PyTorch

Inference Compilation and Universal Probabilistic Programming

Etalumis: Bringing Probabilistic Programming to Scientific Simulators at Scale

PROCEEDINGS OF SC19: THE INTERNATIONAL CONFERENCE FOR HIGH PERFORMANCE COMPUTING, NETWORKING, STORAGE AND ANALYSIS

Efficient Probabilistic Inference in the Quest for Physics Beyond the Standard Model

Planning as Inference in Epidemiological Models

Amortized Rejection Sampling in Universal Probabilistic Programming

Simulation-Based Inference for Global Health Decisions

Spacecraft Collision Risk Assessment with Probabilistic Programming


OSeMOSYS - the Open Source Energy Modelling System

Developing a community of practice around an open source energy modelling tool

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

A clustering approach to improve spatial representation in water-energy-food models


G2P with Tensorflow

The Zero Resource Speech Benchmark 2021: Metrics and baselines for unsupervised spoken language modeling

An investigation of phone-based subword units for end-to-end speech recognition

Grapheme-to-Phoneme Conversion with Convolutional Neural Networks

Creating DALI, a Large Dataset of Synchronized Audio, Lyrics, and Notes

Transactions of the International Society for Music Information Retrieval

ASR for Non-standardised Languages with Dialectal Variation: the case of Swiss German

Workshop on NLP for Similar Languages, Varieties and Dialects

Towards Real-time Mispronunciation Detection in Kids' Speech

End-to-end style-conditioned poetry generation: What does it take to learn from examples alone?

Proceedings of the 5th Joint SIGHUM Workshop on Computational Linguistics for Cultural Heritage, Social Sciences, Humanities and Literature

PronouncUR: An Urdu Pronunciation Lexicon Generator

Are word boundaries useful for unsupervised language learning?

Exploring word embeddings and phonological similarity for the unsupervised correction of language learner errors

SIGHUM Workshop on Language Technology for Cultural Heritage, Social Sciences, and Humanities


AI to Combat Environmental Pollution - detecting plastic waste in the environment to combat environmental pollution and promote circular economy (Deep Learning, PyTorch)

Deep learning-based waste detection in natural and urban environments


PGPortfolio: Policy Gradient Portfolio, the source code of "A Deep Reinforcement Learning Framework for the Financial Portfolio Management Problem"(https://arxiv.org/pdf/1706.10059.pdf).

Cryptocurrency Portfolio Management with Deep Reinforcement Learning

Model-Free Reinforcement Learning for Financial Portfolios: A Brief Survey

Deep Reinforcement Learning For Trading - A Critical Survey

International Conference on Data Technologies and Applications


Arduino Cryptography Library

Security and Performance in IoT: A Balancing Act

Ultra Lightweight Multiple-Time Digital Signature for the Internet of Things Devices

Efficient Implementation of the SHA-512 Hash Function for 8-Bit AVR Microcontrollers

A Lightweight Key Agreement Protocol Based on Chinese Remainder Theorem and ECDH for Smart Homes

IoD-Crypt: A Lightweight Cryptographic Framework for Internet of Drones

Energy-Aware Digital Signatures for Embedded Medical Devices

Trusted Operations on Sensor Data †


Efficiently controlling for case-control imbalance and sample relatedness in large-scale genetic association studies

Genetic diversity fuels gene discovery for tobacco and alcohol use

HOPS: a quantitative score reveals pervasive horizontal pleiotropy in human genetic variation is driven by extreme polygenicity of human traits and diseases

Causal effects of gut microbiota on diabetic retinopathy: A Mendelian randomization study

Loss-of-function genomic variants highlight potential therapeutic targets for cardiovascular disease

GWAS of serum ALT and AST reveals an association of SLC30A10 Thr95Ile with hypermanganesemia symptoms

The role of vitamin C in pneumonia and COVID-19 infection in adults with European ancestry: a Mendelian randomisation study

Graves’ Disease and Rheumatoid Arthritis: A Bidirectional Mendelian Randomization Study

Prioritization of candidate causal genes in GWAS signals of asthma in UK Biobank

Host genetic factors of COVID-19 susceptibility and disease severity in a Thai population


ISA Extensions for Finite Field Arithmetic

Fault Attacks on CCA-secure Lattice KEMs

High-order Table-based Conversion Algorithms and Masking Lattice-based Encryption

Formally verifying Kyber


Highly comparative time-series analysis

Highly comparative time-series analysis: the empirical structure of time series and their methods

Forecasting: theory and practice

Automatic time-series phenotyping using massive feature extraction

catch22: CAnonical Time-series CHaracteristics

Feature-based time-series analysis

2015 Brainhack Proceedings

Discovery of signatures of fatal neonatal illness in vital signs using highly comparative time-series analysis

FV 12. Non-invasive Suppression of Essential Tremor via Phase-Locked Disruption of its Temporal Coherence

Classifying Kepler light curves for 12 000 A and F stars using supervised feature-based machine learning

Monthly notices of the Royal Astronomical Society

A Physiology-Driven Computational Model for Post-Cardiac Arrest Outcome Prediction


Multi-GPU mini-framework for Theano

Theano: A Python framework for fast computation of mathematical expressions

Deep learning with Elastic Averaging SGD

Qualitative analysis of deep learning frameworks


This is an official implementation for "Swin Transformer: Hierarchical Vision Transformer using Shifted Windows".

Swin Transformer V2: Scaling Up Capacity and Resolution

Local Relation Networks for Image Recognition

Focal Attention for Long-Range Interactions in Vision Transformers

Efficient Self-supervised Vision Transformers for Representation Learning

HTS-AT: A Hierarchical Token-Semantic Audio Transformer for Sound Classification and Detection

Self-Supervised Learning with Swin Transformers

Efficient Training of Visual Transformers with Small Datasets

Vision Transformers with Patch Diversification

Two-Stream Swin Transformer with Differentiable Sobel Operator for Remote Sensing Image Classification


✂ Automated high-quality background removal framework for an image using neural networks. ✂

SyncDreamer: Generating Multiview-consistent Images from a Single-view
  Image

DreamSim: Learning New Dimensions of Human Visual Similarity using
  Synthetic Data

HarmonyView: Harmonizing Consistency and Diversity in One-Image-to-3D

Guide3D: Create 3D Avatars from Text and Image Guidance

Are These the Same Apple? Comparing Images Based on Object Intrinsics


a general-purpose fuzzer

Evaluating Fuzz Testing

The Art, Science, and Engineering of Fuzzing: A Survey

Not all bytes are equal: Neural byte sieve for fuzzing

PropFuzz — An IT-security fuzzing framework for proprietary ICS protocols

International Conference on Applied Electronics

Adaptive Grey-Box Fuzz-Testing with Thompson Sampling

Proceedings of the 11th ACM Workshop on Artificial Intelligence and Security

P-Fuzz: A Parallel Grey-Box Fuzzing Framework

Exposing Bugs in JavaScript Engines through Test Transplantation and Differential Testing

Improving Grey-Box Fuzzing by Modeling Program Behavior

Technical Report: Hardening Code Obfuscation Against Automated Attacks


Python package for implementing a number of Machine Learning, Randomized Optimization and SEarch algorithms.

SemEval-2020 Task 1: Unsupervised Lexical Semantic Change Detection

Counterfactual Explanations for Multivariate Time Series

Proposed for presentation at the ICAPAI 2021: International Conference on Applied Artificial Intelligence held May 19-21, 2021.

Multi-Agent Reinforcement Learning for Visibility-based Persistent Monitoring

OneStopTuner: An End to End Architecture for JVM Tuning of Spark
  Applications

Improvements for mlrose Applied to the Traveling Salesperson Problem


A library for federated learning (a distributed machine learning process) in an enterprise environment.

IBM Federated Learning: an Enterprise Framework White Paper V0.1

Architectural Patterns for the Design of Federated Learning Systems

Federated Learning for Healthcare Domain - Pipeline, Applications and Challenges

ACM transactions on computing for healthcare

FLoRA: Single-shot Hyper-parameter Optimization for Federated Learning

FLRA: A Reference Architecture for Federated Learning Systems

Adaptive Aggregation For Federated Learning

Single-shot Hyper-parameter Optimization for Federated Learning: A
  General Algorithm & Analysis

Deepfakes, Phrenology, Surveillance, and More! A Taxonomy of AI Privacy
  Risks

FLIPS: Federated Learning using Intelligent Participant Selection

Intrusion Detection based on Federated Learning: a systematic review


Collection of EM algorithms for blind source separation of audio signals

Unsupervised training of a deep clustering model for multichannel blind
  source separation

Unsupervised training of neural mask-based beamforming

A Comparison and Combination of Unsupervised Blind Source Separation Techniques.

Integration of variational autoencoder and spatial clustering for
  adaptive multi-channel neural speech separation

UNSSOR: Unsupervised Neural Speech Separation by Leveraging
  Over-determined Training Mixtures


Creative Commons Attribution 4.0 International

Project's architecture documentation


Auto Tune Models - A multi-tenant, multi-data system for automated machine learning (model selection and tuning).

Benchmark and Survey of Automated Machine Learning Frameworks

Automated Machine Learning: State-of-The-Art and Open Challenges

AutoML to Date and Beyond: Challenges and Opportunities

ATM: A distributed, collaborative, scalable system for automated machine learning

Machine learning 2.0 : Engineering Data Driven AI Products

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


ITHACA-SEM - In real Time Highly Advanced Computational Applications for Spectral Element Methods

Efficient computation of bifurcation diagrams with a deflated approach to reduced basis spectral element method

Reduced basis model order reduction for Navier–Stokes equations in domains with walls of varying curvature

International journal of computational fluid dynamics

A Spectral Element Reduced Basis Method for Navier-Stokes Equations with
  Geometric Variations

PERFORM: A Python package for developing reduced-order models for reacting fluid flows

Model Reduction Using Sparse Polynomial Interpolation for the
  Incompressible Navier-Stokes Equations


Veidt is a deep learning library for materials science.

Opportunities and Challenges for Machine Learning in Materials Science

Automated generation and ensemble-learned matching of X-ray absorption spectra

Random Forest Models for Accurate Identification of Coordination Environments from X-Ray Absorption Near-Edge Structure

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


Visual Studio Code extension for VDM language support

The Specification Language Server Protocol: A Proposal for Standardised LSP Extensions


homebrew (macOS) packages for RISC-V toolchain


A workflow to build models of the European electricity system for Calliope.

Trade-Offs between Geographic Scale, Cost, and Infrastructure Requirements for Fully Renewable Electricity in Europe

euro-calliope: pre-built models

Zenodo (CERN European Organization for Nuclear Research)


A fortran package for analysis and diagnostics on NEMO ocean model output.

Climate and marine biogeochemistry during the Holocene from transient model simulations

The Impact of Tides on the Bay of Biscay Dynamics

Journal of marine science and engineering

On constraining the mesoscale eddy energy dissipation time-scale

Ensemble quantification of short-term predictability of the ocean dynamics at kilometric-scale resolution: A Western Mediterranean test-case

Robust estimates for the decadal evolution of Agulhas leakage from the 1960s to the 2010s


Virtual Knowledge Graph Creation from RDB with R2RML

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

Enhancing virtual ontology based access over tabular data with Morph-CSV

The Query Translation Landscape: a Survey

Querying clinical data in HL7 RIM based relational model with morph-RDB

Training Neural Language Models with SPARQL queries for Semi-Automatic Semantic Mapping

Enhancing OBDA Query Translation over Tabular Data with Morph-CSV.


pyWATTS: Python Workflow Automation Tool for Time-Series

pyWATTS: Python Workflow Automation Tool for Time Series

Controlling non-stationarity and periodicities in time series generation using conditional invertible neural networks

Concepts for Automated Machine Learning in Smart Grid Applications

Creating Probabilistic Forecasts from Arbitrary Deterministic Forecasts
  using Conditional Invertible Neural Networks

ProbPNN: Enhancing Deep Probabilistic Forecasting with Statistical
  Information


Theano-based implementation of Deep Q-learning

Playing Atari with Deep Reinforcement Learning

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

Unmasking Clever Hans predictors and assessing what machines really learn

Adversarial Attacks on Neural Network Policies

Revisiting the Softmax Bellman Operator: New Benefits and New Perspective

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


A WebGL viewer for UMAP or TSNE-clustered images

The Newspaper Navigator Dataset Extracting Headlines and Visual Content from 16 Million Historic Newspaper Pages in Chronicling America

International Conference on Information and Knowledge Management

The Newspaper Navigator Dataset: Extracting And Analyzing Visual Content from 16 Million Historic Newspaper Pages in Chronicling America

Collection Space Navigator: An Interactive Visualization Interface for Multidimensional Datasets

Visualising vapours

Visualizing a Large Spatiotemporal Collection of Historic Photography with a Generous Interface


Trained models & code to predict toxic comments on all 3 Jigsaw Toxic Comment Challenges. Built using ⚡ Pytorch Lightning and  Transformers. For access to our API, please email us at contact@unitary.ai.

Automated Hate Speech Detection and the Problem of Offensive Language

Racial Bias in Hate Speech and Abusive Language Detection Datasets

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

A General Language Assistant as a Laboratory for Alignment

A Gentle Introduction to Conformal Prediction and Distribution-Free
  Uncertainty Quantification

OpenAssistant Conversations -- Democratizing Large Language Model
  Alignment

Predictability and Surprise in Large Generative Models

SemEval-2021 Task 5: Toxic Spans Detection

Meeting of the Association for Computational Linguistics

DataComp: In search of the next generation of multimodal datasets

Fine-tuning Aligned Language Models Compromises Safety, Even When Users
  Do Not Intend To!


Creative Commons Attribution Share Alike 4.0 International

An introduction to our Answer Set Programming tools focusing on gringo, clingo, and clasp.

plasp 3: Towards Effective ASP Planning

Theory and practice of logic programming

Specifying and Verbalising Answer Set Programs in Controlled Natural Language

Coupling Large Language Models with Logic Programming for Robust and General Reasoning from Text

Guiding Robot Exploration in Reinforcement Learning via Automated Planning

Semantic Task Planning for Service Robots in Open World

Strong Equivalence of Logic Programs with Counting

Verification of Locally Tight Programs

Automated Aggregator - Rewriting with the Counting Aggregate

External Behavior of a Logic Program and Verification of Refactoring

Learning to Solve Constraint Satisfaction Problems with Recurrent
  Transformer


ESP8266 WiFi for OpenEVSE Version 2.x


MQT QMAP - A tool for Quantum Circuit Mapping written in C++

Qubit Mapping and Routing via MaxSAT

Limiting the Search Space in Optimal Quantum Circuit Mapping

On Optimal Subarchitectures for Quantum Circuit Mapping

A SAT Encoding for Optimal Clifford Circuit Synthesis

MQT QMAP: Efficient Quantum Circuit Mapping

Proceedings of the 2023 International Symposium on Physical Design

Depth-Optimal Synthesis of Clifford Circuits with SAT Solvers


DEPRECATED, now in sktime - companion package for deep learning based on TensorFlow

sktime: A Unified Interface for Machine Learning with Time Series

HIVE-COTE 2.0: a new meta ensemble for time series classification

The Canonical Interval Forest (CIF) Classifier for Time Series Classification

The FreshPRINCE: A Simple Transformation Based Pipeline Time Series Classifier

Forecasting with sktime: Designing sktime's New Forecasting API and Applying It to Replicate and Extend the M4 Study.


Dopamine is a research framework for fast prototyping of reinforcement learning algorithms.

Prioritized Experience Replay

Soft Actor-Critic Algorithms and Applications

An Introduction to Deep Reinforcement Learning

Foundations and trends in machine learning

Model-Based Reinforcement Learning for Atari

Implicit Quantile Networks for Distributional Reinforcement Learning

Dopamine: A Research Framework for Deep Reinforcement Learning

Deep Reinforcement Learning

Obstacle Tower: A Generalization Challenge in Vision, Control, and Planning

DisCor: Corrective Feedback in Reinforcement Learning via Distribution Correction

Reinforcement Learning based Curriculum Optimization for Neural Machine Translation


EventStream is like functional programming meets IO

Small World with High Risks: A Study of Security Threats in the npm Ecosystem

On the impact of security vulnerabilities in the npm and RubyGems dependency networks

Security Issues in Language-based Software Ecosystems

Automatically Assessing and Extending Code Coverage for NPM Packages

Software supply chain: review of attacks, risk assessment strategies and
  security controls


The official home of climt, a Python based climate modelling toolkit.

sympl (v. 0.4.0) and climt (v. 0.15.3) – towards a flexible framework for building model hierarchies in Python

Effects of Ozone Levels on Climate Through Earth History


Kafka-ML: connecting the data stream with ML/AI frameworks (now TensorFlow and PyTorch!)

An open source framework based on Kafka-ML for Distributed DNN inference over the Cloud-to-Things continuum

The orchestration of Machine Learning frameworks with data streams and GPU acceleration in Kafka‐ML: A deep‐learning performance comparative

OpenTwins: An open-source framework for the design, development and
  integration of effective 3D-IoT-AI-powered digital twins


PyAutoLens: Open Source Strong Gravitational Lensing

AutoLens: automated modeling of a strong lens’s light, mass, and source

Monthly Notices of the Royal Astronomical Society

PyAutoLens: Open-Source Strong Gravitational Lensing

Galaxy structure with strong gravitational lensing: decomposing the internal mass distribution of massive elliptical galaxies

CO, H2O, H2O+ line and dust emission in a z = 3.63 strongly lensed starburst merger at sub-kiloparsec scales

A forward-modelling method to infer the dark matter particle mass from strong gravitational lenses

Automated galaxy-galaxy strong lens modelling: no lens left behind

Strong lens modelling: comparing and combining Bayesian neural networks and parametric profile fitting

Galaxy–galaxy strong lens perturbations: line-of-sight haloes versus lens subhaloes

Auto-identification of unphysical source reconstructions in strong gravitational lens modelling

Systematic Errors Induced by the Elliptical Power-law model in Galaxy–Galaxy Strong Lens Modeling


YOLOv4, YOLOv4-tiny, YOLOv3, YOLOv3-tiny Implemented in Tensorflow 2.0, Android. Convert YOLO v4 .weights tensorflow, tensorrt and tflite

YOLOv4: Optimal Speed and Accuracy of Object Detection

A Deep Learning Framework Performance Evaluation to Use YOLO in Nvidia Jetson Platform

Seed Phenotyping on Neural Networks using Domain Randomization and Transfer Learning

YOLO -- You only look 10647 times

PyMouseTracks: Flexible Computer Vision and RFID-Based System for Multiple Mouse Tracking and Behavioral Assessment

Iranian License Plate Recognition Using a Reliable Deep Learning
  Approach


Chinese version of GPT2 training code, using BERT tokenizer.

An fMRI Dataset for Concept Representation with Semantic Feature Annotations

Information Extraction and Human-Robot Dialogue towards Real-life Tasks:
  A Baseline Study with the MobileCS Dataset

HkAmsters at CMCL 2022 Shared Task: Predicting Eye-Tracking Data from a Gradient Boosting Framework with Linguistic Features

Workshop on Cognitive Modeling and Computational Linguistics

Towards Fine-Grained Information: Identifying the Type and Location of
  Translation Errors

Research on user granularity-level personalized social text generation technology

Mining Error Templates for Grammatical Error Correction

Are Pre-trained Language Models Useful for Model Ensemble in Chinese Grammatical Error Correction?

Multi-Modal Experience Inspired AI Creation

Proceedings of the 30th ACM International Conference on Multimedia

Modern Distributed Data-Parallel Large-Scale Pre-training Strategies For
  NLP models

Edit As You Wish: Video Description Editing with Multi-grained Commands


Generation-based, context-free grammar fuzzer. Refer to https://github.com/posidron/dharma for a maintained version.

The Art, Science, and Engineering of Fuzzing: A Survey

UNIFUZZ: A Holistic and Pragmatic Metrics-Driven Platform for Evaluating Fuzzers

Building Fast Fuzzers

Augmenting Greybox Fuzzing with Generative AI

RAT: Reinforcement-Learning-Driven and Adaptive Testing for Vulnerability Discovery in Web Application Firewalls

IEEE Transactions on Dependable and Secure Computing/IEEE transactions on dependable and secure computing

CorbFuzz: Checking Browser Security Policies with Fuzzing


Rainbow is all you need! A step-by-step tutorial from DQN to Rainbow

Playing Atari with Deep Reinforcement Learning

Deep Reinforcement Learning with Double Q-learning

Dueling Network Architectures for Deep Reinforcement Learning

Prioritized Experience Replay

Rainbow: Combining Improvements in Deep Reinforcement Learning

A Distributional Perspective on Reinforcement Learning

Noisy Networks for Exploration


Define your science modules to add values to Fink alerts!

fink, a new generation of broker for the LSST community

Fink: early supernovae Ia classification using active learning

Paying Attention to Astronomical Transients: Introducing the Time-series
  Transformer for Photometric Classification

The Tiny Time-series Transformer: Low-latency High-throughput Classification of Astronomical Transients using Deep Model Compression


[NeurIPS 2023 Datasets and Benchmarks Track] LAMM: Multi-Modal Large Language Models and Applications as AI Agents

Instruction Tuning for Large Language Models: A Survey

LAMM: Language-Assisted Multi-Modal Instruction-Tuning Dataset,
  Framework, and Benchmark

Octavius: Mitigating Task Interference in MLLMs via LoRA-MoE

EPCL: Frozen CLIP Transformer is An Efficient Point Cloud Encoder

Depicting Beyond Scores: Advancing Image Quality Assessment through
  Multi-modal Language Models

MP5: A Multi-modal Open-ended Embodied System in Minecraft via Active
  Perception

ChEF: A Comprehensive Evaluation Framework for Standardized Assessment
  of Multimodal Large Language Models


An analysis of concurrency control protocols for in-memory databases with CCBench

Releasing Locks As Early As You Can: Reducing Contention of Hotspots by Violating Two-Phase Locking

Polynesia: Enabling Effective Hybrid Transactional/Analytical Databases with Specialized Hardware/Software Co-Design.

Taurus: Lightweight Parallel Logging for In-Memory Database Management
  Systems (Extended Version)

Polynesia: Enabling High-Performance and Energy-Efficient Hybrid Transactional/Analytical Databases with Hardware/Software Co-Design

The full story of 1000 cores


Flexible Bayesian Optimization in R

Hyperparameter optimization: Foundations, algorithms, best practices, and open challenges

YAHPO Gym -- An Efficient Multi-Objective Multi-Fidelity Benchmark for
  Hyperparameter Optimization

Mutation is all you need


A unified evaluation framework for large language models

PromptBench: Towards Evaluating the Robustness of Large Language Models
  on Adversarial Prompts

DyVal: Dynamic Evaluation of Large Language Models for Reasoning Tasks

PromptBench: A Unified Library for Evaluation of Large Language Models


LightweightMMM  is a lightweight Bayesian Marketing Mix Modeling (MMM) library that allows users to easily train MMMs and obtain channel attribution information.


Efficient target prediction incorporating accessibility of interaction sites

IntaRNA 2.0: enhanced and customizable prediction of RNA-RNA interactions

CopraRNA and IntaRNA: predicting small RNA targets, networks and interaction domains

SHAPE directed RNA folding

Integration of accessibility data from structure probing into RNA-RNA interaction prediction

Structure and Interaction Prediction in Prokaryotic RNA Biology

Regulating with RNA in Bacteria and Archaea

sRNARFTarget: a fast machine-learning-based approach for transcriptome-wide sRNA target prediction

MiR-743a-5p regulates differentiation of myoblast by targeting Mob1b in skeletal muscle development and regeneration

Interactive implementations of thermodynamics-based RNA structure and RNA–RNA interaction prediction approaches for example-driven teaching

IntaRNAhelix-composing RNA-RNA interactions from stable inter-molecular helices boosts bacterial sRNA target prediction

Journal of bioinformatics and computational biology

CopomuS—Ranking Compensatory Mutations to Guide RNA-RNA Interaction Verification Experiments

International journal of molecular sciences


3D U-Net model for volumetric semantic segmentation written in pytorch

Squeeze-and-Excitation Networks

3D U-Net: Learning Dense Volumetric Segmentation from Sparse Annotation

Вестник компьютерных и информационных технологий

Generalised Dice overlap as a deep learning loss function for highly unbalanced segmentations

Superhuman Accuracy on the SNEMI3D Connectomics Challenge

Spatially Varying Label Smoothing: Capturing Uncertainty from Expert Annotations

Memory Optimization for Deep Networks

3D FLAT: Feasible Learned Acquisition Trajectories for Accelerated MRI

MulViMotion: Shape-Aware 3D Myocardial Motion Tracking From Multi-View Cardiac MRI

Mesh-based 3D Motion Tracking in Cardiac MRI using Deep Learning

3D Molecular Generation via Virtual Dynamics


Augmentation pipeline for rendering synthetic paper printing, faxing, scanning and copy machine processes

Augraphy: A Data Augmentation Library for Document Images

ShabbyPages: A Reproducible Document Denoising and Binarization Dataset


viral-ngs: complete pipelines

Impaired local intrinsic immunity to SARS-CoV-2 infection in severe COVID-19

bioRxiv : the preprint server for biology

Intrathecal inflammatory responses in the absence of SARS-CoV-2 nucleic acid in the CSF of COVID-19 hospitalized patients

Rapid repeat infection of SARS-CoV-2 by two highly distinct delta-lineage viruses

Severe COVID-19 is associated with fungal colonization of the nasopharynx and potent induction of IL-17 responses in the nasal epithelium

medRxiv : the preprint server for health sciences

Rapid Lineage Assignment of Severe Acute Respiratory Syndrome Coronavirus 2 Cases through Automated Library Preparation, Sequencing, and Bioinformatic Analysis

The Journal of molecular diagnostics/The journal of molecular diagnostics


NeuroAnatomy Toolbox: An R package for the (3D) visualisation and analysis of biological image data, especially tracings of single neurons.

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

NBLAST: Rapid, Sensitive Comparison of Neuronal Structure and Construction of Neuron Family Databases

Neurogenetic dissection of the Drosophila lateral horn reveals major outputs, diverse behavioural functions, and interactions with the mushroom body

Memory retrieval recruits both innate and learned olfactory processing centres in Drosophila

A Neural Circuit Arbitrates between Persistence and Withdrawal in Hungry Drosophila

Input Connectivity Reveals Additional Heterogeneity of Dopaminergic Reinforcement in Drosophila


Python API for Tesla Powerwall


Open source stochastic quantum chemistry

The HANDE-QMC Project: Open-Source Stochastic Quantum Chemistry from the Ground State Up.

Journal of chemical theory and computation

The Highly Accurate N-DEterminant (HANDE) quantum Monte Carlo project: Open-source stochastic diagonalisation for quantum chemistry

Preconditioning and Perturbative Estimators in Full Configuration Interaction Quantum Monte Carlo

Accelerating convergence to the thermodynamic limit with twist angle selection applied to methods beyond many-body perturbation theory.


Hamilton-Jacobi Reachability: A Brief Overview and Recent Advances

Safe Nonlinear Control Using Robust Neural Lyapunov-Barrier Functions

BaRC: Backward Reachability Curriculum for Robotic Reinforcement Learning

Reachability-Based Safety Guarantees using Efficient Initializations

Formal Certification Methods for Automated Vehicle Safety Assessment

Reach-Avoid Problems via Sum-of-Squares Optimization and Dynamic Programming

TTR-Based Reward for Reinforcement Learning with Implicit Model Priors

Hamilton-Jacobi Equations for Two Classes of State-Constrained Zero-Sum
  Games

Safety Verification of Model Based Reinforcement Learning Controllers

On Safety and Liveness Filtering Using Hamilton-Jacobi Reachability
  Analysis


Hyperparameter optimization that enables researchers to experiment, visualize, and scale quickly.

AutoML to Date and Beyond: Challenges and Opportunities

Sherpa: Robust Hyperparameter Optimization for Machine Learning

Assessing the Potential of Deep Learning for Emulating Cloud Superparameterization in Climate Models with Real-Geography Boundary Conditions

Zenodo (CERN European Organization for Nuclear Research)

Sparse autoregressive models for scalable generation of sparse images in particle physics

Learning to identify electrons

Learning in the Machine: To Share or Not to Share?

Deep-Learning-Based Kinematic Reconstruction for DUNE

Learning to isolate muons

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

Massively Parallel Genetic Optimization through Asynchronous Propagation
  of Populations

Interpretable Joint Event-Particle Reconstruction for Neutrino Physics at NOvA with Sparse CNNs and Transformers


A Neural Machine Translation toolkit for research purpose

Very Deep Self-Attention Networks for End-to-End Speech Recognition

Improving Zero-shot Translation with Language-Independent Constraints

Adaptive multilingual speech recognition with pretrained models

Adapting End-to-End Speech Recognition for Readable Subtitles

Improving Multilingual Neural Machine Translation For Low-Resource Languages: French, English - Vietnamese

KIT’s IWSLT 2021 Offline Speech Translation System

Proceedings of the 18th International Conference on Spoken Language Translation (IWSLT 2021)

Towards Efficient Simultaneous Speech Translation: CUNI-KIT System for Simultaneous Track at IWSLT 2023

Proceedings of the 20th International Conference on Spoken Language Translation (IWSLT 2023)

How Transformer Revitalizes Character-based Neural Machine Translation: An Investigation on Japanese-Vietnamese Translation Systems

The UET-ICTU Submissions to the VLSP 2020 News Translation Task


A lightweight 3D Morphable Face Model library in modern C++

A Multiresolution 3D Morphable Face Model and Fitting Framework

3D Face Tracking and Texture Fusion in the Wild

A 3D Face Modelling Approach for Pose-Invariant Face Recognition in a Human-Robot Environment


This is the implementation of Sparse Projection Oblique Randomer Forest

Sparse Projection Oblique Randomer Forests

Forest Packing: Fast, Parallel Decision Forests


This is the implementation of Noise2Void training.

Noise2Void - Learning Denoising from Single Noisy Images

Noisier2Noise: Learning to Denoise from Unpaired Noisy Data

Noise2Context: Context-assisted Learning 3D Thin-layer Low Dose CT Without Clean Data

Fluorescence microscopy datasets for training deep neural networks

Deformation-Compensated Learning for Image Reconstruction Without Ground Truth

Improved Imaging by Invex Regularizers with Global Optima Guarantees

N2V2 -- Fixing Noise2Void Checkerboard Artifacts with Modified Sampling
  Strategies and a Tweaked Network Architecture

Repair of noise-induced damage to stereocilia F-actin cores is facilitated by XIRP2 and its novel mechanosensor domain

Noise suppression in photon-counting CT using unsupervised Poisson flow
  generative models

Live-cell imaging powered by computation


Gaussian Process package based on data augmentation, sparsity and natural gradients

When Gaussian Process Meets Big Data: A Review of Scalable GPs

Efficient Gaussian Process Classification Using Polya-Gamma Data Augmentation

Multi-Class Gaussian Process Classification Made Conjugate: Efficient Inference via Data Augmentation

Scalable Gaussian Process Classification with Additive Noise for Various Likelihoods


Black-box Optimizer based on Bayesian Optimization

OpenBox: A Generalized Black-box Optimization Service

πBO: Augmenting Acquisition Functions with User Beliefs for Bayesian
  Optimization

Bayesian Optimization with a Prior for the Optimum

Prior-guided Bayesian Optimization

c-TPE: Tree-structured Parzen Estimator with Inequality Constraints for Expensive Hyperparameter Optimization

HypBO: Accelerating Black-Box Scientific Experiments Using Experts' Hypotheses


Transform ML models into a native code (Java, C, Python, Go, JavaScript, Visual Basic, C#, R, PowerShell, PHP, Dart, Haskell, Ruby, F#, Rust) with zero dependencies

Introducing the Monitoring Equipment Mask Environment

TinyML Platforms Benchmarking

Are Microcontrollers Ready for Deep Learning-Based Human Activity Recognition?

Lightweight On-Device Detection of Android Malware Based on the Koodous Platform and Machine Learning

An Open-Source Tool for Classification Models in Resource-Constrained Hardware


The Biorefinery Simulation and Techno-Economic Analysis Modules; Life Cycle Assessment; Chemical Process Simulation Under Uncertainty

BioSTEAM: A Fast and Flexible Platform for the Design, Simulation, and Techno-Economic Analysis of Biorefineries under Uncertainty

Techno-Economic Evaluation of Biorefineries Based on Low-Value Feedstocks Using the BioSTEAM Software: A Case Study for Animal Bedding

QSDsan: an integrated platform for quantitative sustainable design of sanitation and resource recovery systems

Environmental science. Water research & technology


R package for analyzing and interactively exploring large-scale single-cell RNA-seq datasets

Integrative single-cell analysis of transcriptional and epigenetic states in the human adult brain

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

Host-Viral Infection Maps Reveal Signatures of Severe COVID-19 Patients

Single-cell analysis uncovers fibroblast heterogeneity and criteria for fibroblast and mural cell identification and discrimination

The Neonatal and Adult Human Testis Defined at the Single-Cell Level

Unravelling Intratumoral Heterogeneity through High-Sensitivity Single-Cell Mutational Analysis and Parallel RNA Sequencing

SARS-CoV-2 Receptors and Entry Genes Are Expressed in the Human Olfactory Neuroepithelium and Brain

Best practices for single-cell analysis across modalities

Reconstruction of the global neural crest gene regulatory network in vivo

Integration of spatial and single-cell transcriptomics localizes epithelial cell–immune cross-talk in kidney injury


Tools and methods for analysis of single cell assay data in R

MAST: a flexible statistical framework for assessing transcriptional changes and characterizing heterogeneity in single-cell RNA sequencing data

Single-Cell RNA-Seq Technologies and Related Computational Data Analysis

SCnorm: robust normalization of single-cell RNA-seq data

A statistical approach for identifying differential distributions in single-cell RNA-seq experiments

Signatures of plasticity, metastasis, and immunosuppression in an atlas of human small cell lung cancer

Single-Cell Transcriptomics Bioinformatics and Computational Challenges

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

Computational approaches for interpreting scRNA-seq data

Comparison of methods to detect differentially expressed genes between single-cell populations

Quantitative proteomics and single-nucleus transcriptomics of the sinus node elucidates the foundation of cardiac pacemaking


A list of interesting genome browser or genome-browser-like implementations

Tasks, Techniques, and Tools for Genomic Data Visualization

Computer graphics forum : journal of the European Association for Computer Graphics

svist4get: a simple visualization tool for genomic tracks from sequencing experiments

RepViz: a replicate-driven R tool for visualizing genomic regions


Finds SNP sites from a multi-FASTA alignment file

Prediction of antibiotic resistance in Escherichia coli from large-scale pan-genome data

Genome-Wide Variation in Potyviruses

Global phylogeography and evolutionary history of Shigella dysenteriae type 1

RdRp mutations are associated with SARS-CoV-2 genome evolution

Maize pan-transcriptome provides novel insights into genome complexity and quantitative trait variation

Evolution of the Staphylococcus argenteus ST2250 Clone in Northeastern Thailand Is Linked with the Acquisition of Livestock-Associated Staphylococcal Genes

“I Would Have Become Wallpaper Had Racism Had Its Way”: Black Female Professors, Racial Battle Fatigue, and Strategies for Surviving Higher Education

A One Health Study of the Genetic Relatedness of Klebsiella pneumoniae and Their Mobile Elements in the East of England

Clinical infectious diseases/Clinical infectious diseases (Online. University of Chicago. Press)

Information about variations in multiple copies of bacterial 16S rRNA genes may aid in species identification

Molecular characterization of carbapenem-resistant and virulent plasmids in Klebsiella pneumoniae from patients with bloodstream infections in China


Provide Semantic Parsing solutions and Natural Language Inferences for multiple languages following the idea of the syntax-semantics interface.

Higher-order logical inference with compositional semantics

Empirical Methods in Natural Language Processing

ccg2lambda: A Compositional Semantics System

PROCEEDINGS OF 54TH ANNUAL MEETING OF THE ASSOCIATION FOR COMPUTATIONAL LINGUISTICS (ACL-2016): SYSTEM DEMONSTRATIONS

On-demand Injection of Lexical Knowledge for Recognising Textual Entailment

Conference of the European Chapter of the Association for Computational Linguistics

Acquisition of Phrase Correspondences using Natural Deduction Proofs

Building compositional semantics and higher-order inference system for a wide-coverage Japanese CCG parser

Logical Inferences with Comparatives and Generalized Quantifiers

Visual Denotations for Recognizing Textual Entailment

Combining Axiom Injection and Knowledge Base Completion for Efficient Natural Language Inference

Determining Semantic Textual Similarity using Natural Deduction Proofs

Neural sentence generation from formal semantics

International Conference on Natural Language Generation


Time series distances: Dynamic Time Warping (fast  DTW implementation in C)

Measuring Football Players' On-the-ball Contributions From Passes During Games

What Are Good Situations for Running? A Machine Learning Study Using Mobile and Geographical Data

Scalable Comparison of JavaScript V8 Bytecode Traces

PROCEEDINGS OF THE 11TH ACM SIGPLAN INTERNATIONAL WORKSHOP ON VIRTUAL MACHINES AND INTERMEDIATE LANGUAGES (VMIL '19)

SentimentArcs: A Novel Method for Self-Supervised Sentiment Analysis of Time Series Shows SOTA Transformers Can Struggle Finding Narrative Arcs

Data-driven modeling of noise time series with convolutional generative adversarial networks.

Multi-Scale Spatiotemporal Change Characteristics Analysis of High-Frequency Disturbance Forest Ecosystem Based on Improved Spatiotemporal Cube Model

An Empirical Study of Graph-Based Approaches for Semi-supervised Time Series Classification


Distributed machine learning infrastructure for large-scale robotics research

BC-Z: Zero-Shot Task Generalization with Robotic Imitation Learning

Grasp2Vec: Learning Object Representations from Self-Supervised Grasping.

RetinaGAN: An Object-aware Approach to Sim-to-Real Transfer

Watch, Try, Learn: Meta-Learning from Demonstrations and Reward


The Renewable Energy Potential(V) eXchange Tool: reVX


The intent is for the Landscape to be a living document that developers, investors, vendors, researchers and others can use as a resource.


Multiblob method for rigid bodies

Hydrodynamics of suspensions of passive and active rigid particles: a rigid multiblob approach

Communications in applied mathematics and computational science

Brownian Dynamics of Confined Rigid Bodies

An Immersed Boundary method with divergence-free velocity interpolation and force spreading

Large Scale Brownian Dynamics of Confined Suspensions of Rigid Particles

Brownian dynamics of confined suspensions of active microrollers

Driven dynamics in dense suspensions of microrollers

A fluctuating boundary integral method for Brownian suspensions

Brownian dynamics of fully confined suspensions of rigid particles without Green’s functions

Hydrodynamic fluctuations in quasi-two dimensional diffusion

Computing hydrodynamic interactions in confined doubly-periodic
  geometries in linear time


Bioinformatics workflows for genomic characterization, submission preparation, and genomic epidemiology of viral pathogens of concern, especially SARS-CoV-2

Development of an amplicon-based sequencing approach in response to the global emergence of human monkeypox virus

Monkeypox virus multiplexed PCR amplicon sequencing (PrimalSeq) v2

Pathogen genomics in public health laboratories: successes, challenges, and lessons learned from California’s SARS-CoV-2 Whole-Genome Sequencing Initiative, California COVIDNet


Create emissions inputs for multiple air quality modeling systems with unmatched speed and flexibility


A platform for developing AI systems as described in A Roadmap towards Machine Intelligence - http://arxiv.org/abs/1511.08130

ParlAI: A Dialog Research Software Platform

A Roadmap towards Machine Intelligence

CommAI: Evaluating the first steps towards a useful general AI

Combinatory Chemistry: Towards a Simple Model of Emergent Evolution

Class-Agnostic Continual Learning of Alternating Languages and Domains.


Utility functions for working with DICOM and BIDS neuroimaging data

Intrinsic Functional Connectivity of the Brain in Adults with a Single Cerebral Hemisphere

BIDScoin: A User-Friendly Application to Convert Source Data to Brain Imaging Data Structure

Reorganization of the Social Brain in Individuals with Only One Intact Cerebral Hemisphere

The BIDS Toolbox: A web service to manage brain imaging datasets


LibFewShot: A Comprehensive Library for Few-shot Learning. TPAMI 2023.

LibFewShot: A Comprehensive Library for Few-Shot Learning

Does Few-shot Learning Suffer from Backdoor Attacks?


Open Scripts and pipelines from the Multimodal Imaging and Connectome Analysis Lab at the Montreal Neurological Institute

Microstructural and functional gradients are increasingly dissociated in transmodal cortices

Anatomical and microstructural determinants of hippocampal subfield functional connectome embedding

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

Shifts in myeloarchitecture characterise adolescent development of cortical gradients

A multi-scale cortical wiring space links cellular architecture and functional dynamics in the human brain

An expanding manifold in transmodal regions characterizes adolescent reconfiguration of structural connectome organization

Convergence of cortical types and functional motifs in the human mesiotemporal lobe

Targeting Age-Related Differences in Brain and Cognition with Multimodal Imaging and Connectome Topography Profiling

Personality and local brain structure: Their shared genetic basis and reproducibility

Structural Connectivity Gradients of the Temporal Lobe Serve as Multiscale Axes of Brain Organization and Cortical Evolution

Atypical intrinsic neural timescales in temporal lobe epilepsy


Calculate gross GHG emissions, gross carbon removals (sequestration), and net flux from forests globally


Estimated marginal means

AKR-001, an Fc-FGF21 Analog, Showed Sustained Pharmacodynamic Effects on Insulin Sensitivity and Lipid Metabolism in Type 2 Diabetes Patients

Changes in Faecal Microbiota Profiles Associated With Performance and Birthweight of Piglets

Anterior and Posterior Left Inferior Frontal Gyrus Contribute to the Implementation of Grammatical Determiners During Language Production

Inbreeding shapes the evolution of marine invertebrates

Evolution; international journal of organic evolution

Xylem Phenology and Growth Response of European Beech, Silver Fir and Scots Pine along an Elevational Gradient during the Extreme Drought Year 2018

Size-Dependent Sensitivity of Aquatic Insects to Metals

Schoolchildren discover hotspots of floating plastic litter in rivers using a large-scale collaborative approach

Root Microbiome Modulates Plant Growth Promotion Induced by Low Doses of Glyphosate

Fitness costs of individual and combined pyrethroid resistance mechanisms, kdr and CYP-mediated detoxification, in Aedes aegypti

Local Anesthesia in Piglets Undergoing Castration—A Comparative Study to Investigate the Analgesic Effects of Four Local Anesthetics Based on Defensive Behavior and Side Effects

Animals : an open access journal from MDPI


OpenCL library to train deep convolutional neural networks

Multi-column Deep Neural Networks for Image Classification

Fast and Accurate Deep Network Learning by Exponential Linear Units (ELUs)

Deep Learning on FPGAs: Past, Present, and Future

cltorch: a Hardware-Agnostic Backend for the Torch Deep Neural Network Library, Based on OpenCL

GPUReplay: A 50-KB GPU Stack for Client ML


EHT Analysis Toolkit

First M87 Event Horizon Telescope Results. III. Data Processing and Calibration

First Sagittarius A* Event Horizon Telescope Results. II. EHT and Multiwavelength Observations, Data Processing, and Calibration

Event Horizon Telescope observations of the jet launching and collimation in Centaurus A

EHT-HOPS Pipeline for Millimeter VLBI Data Reduction

Persistent Non-Gaussian Structure in the Image of Sagittarius A* at 86 GHz

Software and Techniques for VLBI Data Processing and Analysis


Pythonic Bayesian inference and visualization for the MultiNest Nested Sampling Algorithm and PyCuba's cubature algorithms.

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

juliet: a versatile modelling tool for transiting and non-transiting exoplanetary systems

Monthly notices of the Royal Astronomical Society

HELIOS–RETRIEVAL: An Open-source, Nested Sampling Atmospheric Retrieval Code; Application to the HR 8799 Exoplanets and Inferred Constraints for Planet Formation

MadDM v.3.0: A comprehensive tool for dark matter studies

PSR J0030+0451, GW170817, and the Nuclear Data: Joint Constraints on Equation of State and Bulk Properties of Neutron Stars

A SURVEY OF THE MOLECULAR ISM PROPERTIES OF NEARBY GALAXIES USING THE HERSCHEL FTS

DEVELOPING ATMOSPHERIC RETRIEVAL METHODS FOR DIRECT IMAGING SPECTROSCOPY OF GAS GIANTS IN REFLECTED LIGHT. I. METHANE ABUNDANCES AND BASIC CLOUD PROPERTIES

Early Release Science of the exoplanet WASP-39b with JWST NIRISS

Wind of change: retrieving exoplanet atmospheric winds from high-resolution spectroscopy

Is GW190425 Consistent with Being a Neutron Star–Black Hole Merger?


Small portable AES128/192/256 in C

Invited Paper: Secure Boot and Remote Attestation in the Sanctum Processor

IEEE Computer Security Foundations Symposium

A Fast and Verified Software Stack for Secure Function Evaluation

ARMORY: Fully Automated and Exhaustive Fault Simulation on ARM-M Binaries

Semi-Automatic Locating of Cryptographic Operations in Side-Channel Traces

IACR transactions on cryptographic hardware and embedded systems

Analysis of the NTRU Post-Quantum Cryptographic Scheme in Constrained IoT Edge Devices

Practical Multiple Persistent Faults Analysis

Feasibility Assessment of a Fine-Grained Access Control Model on Resource Constrained Sensors


Python API to access the Copernicus Climate Data Store (CDS)

OpenForecast v2: Development and Benchmarking of the First National-Scale Operational Runoff Forecasting System in Russia

Impact of mobility restrictions on NO2 concentrations in key Latin American cities during the first wave of the COVID-19 pandemic

Identifying the Causes of Pyrocumulonimbus (PyroCb)

Pyrocast: a Machine Learning Pipeline to Forecast Pyrocumulonimbus
  (PyroCb) Clouds


Core code shared by the initial ResearchKit apps.

The mPower study, Parkinson disease mobile data collected using ResearchKit

The asthma mobile health study, smartphone data collected using ResearchKit

Real-world longitudinal data collected from the SleepHealth mobile app study


New LandBOSSE Model (Developed in 2018-2019)


PESTO: Parameter EStimation TOolbox, Bioinformatics, btx676, 2017.

PESTO: Parameter EStimation TOolbox

Optimization and profile calculation of ODE models using second order adjoint sensitivity analysis

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

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

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


Python library containing wind analysis functions


Collaboration between BBP and AIBS

The SONATA Data Format for Efficient Description of Large-Scale Network Models

Building a model of the brain: from detailed connectivity maps to network organization

The European physical journal. Special topics


Specification of the LDBC Social Network Benchmark suite

The LDBC Social Network Benchmark

A logic-based incremental approach to graph repair featuring delta preservation

In-Depth Benchmarking of Graph Database Systems with the Linked Data
  Benchmark Council (LDBC) Social Network Benchmark (SNB)


Paper List for Style Transfer in Text

Deep Learning for Text Style Transfer: A Survey

Text Style Transfer: A Review and Experimental Evaluation

Evaluating the Evaluation Metrics for Style Transfer: A Case Study in Multilingual Formality Transfer


The CBE Clima Tool is a web-based application built to support the need of architects and engineers interested in climate-adapted design.  It allows users to analyze the climate data of more than 27,500 locations worldwide using the data contained in EPW files.


Documentation on how to access and use the Quick, Draw! Dataset.

Hybrid optical-electronic convolutional neural networks with optimized diffractive optics for image classification

Fairness GAN

Deep Generative Dual Memory Network for Continual Learning

Deep Learning for Free-Hand Sketch: A Survey

Multi-Graph Transformer for Free-Hand Sketch Recognition

Large-scale optimal transport map estimation using projection pursuit

Ultra-low latency recurrent neural network inference on FPGAs for physics applications with hls4ml

Exploring Crowd Co-creation Scenarios for Sketches

Deep Learning for Cross-Domain Few-Shot Visual Recognition: A Survey

Counterfactual explanations for misclassified images: How human and machine explanations differ


Open Energy Modelling Framework - Python toolbox for energy system modelling and optimisation

oemof.solph—A model generator for linear and mixed-integer linear optimisation of energy systems

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


You can find the most recent KGQA benchmark numbers from publications here.

Knowledge Graph Question Answering Leaderboard: A Community Resource to
  Prevent a Replication Crisis

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


2019 novel coronavirus repository

Projecting demand for critical care beds during COVID-19 outbreaks in Canada

CMAJ. Canadian Medical Association journal

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

A machine learning methodology for real-time forecasting of the 2019-2020 COVID-19 outbreak using Internet searches, news alerts, and estimates from mechanistic models

Quantifying the impact of COVID-19 control measures using a Bayesian model of physical distancing

SARS-CoV-2 Infection Is at Herd Immunity in the Majority Segment of the Population of Qatar

Learning from Deregulation: The Asymmetric Impact of Lockdown and Reopening on Risky Behavior During COVID-19

Age could be driving variable SARS-CoV-2 epidemic trajectories worldwide

Inferring the number of COVID-19 cases from recently reported deaths

medRxiv : the preprint server for health sciences

An epidemiological forecast model and software assessing interventions on the COVID-19 epidemic in China

Impact Assessment of Full and Partial Stay-at-Home Orders, Face Mask Usage, and Contact Tracing: An Agent-Based Simulation Study of COVID-19 for an Urban Region


tiktoken is a fast BPE tokeniser for use with OpenAI's models.

Qwen Technical Report

LongNet: Scaling Transformers to 1,000,000,000 Tokens

Can Generative Pre-trained Transformers (GPT) Pass Assessments in Higher Education Programming Courses?

Undetectable Watermarks for Language Models

Embers of Autoregression: Understanding Large Language Models Through
  the Problem They are Trained to Solve

ExpeL: LLM Agents Are Experiential Learners

The Belebele Benchmark: a Parallel Reading Comprehension Dataset in 122
  Language Variants

LongLLMLingua: Accelerating and Enhancing LLMs in Long Context Scenarios
  via Prompt Compression

RCOT: Detecting and Rectifying Factual Inconsistency in Reasoning by
  Reversing Chain-of-Thought

SPAE: Semantic Pyramid AutoEncoder for Multimodal Generation with Frozen
  LLMs


GFlowNet library specialized for graph & molecular data

Flow Network based Generative Models for Non-Iterative Diverse Candidate Generation

Trajectory balance: Improved credit assignment in GFlowNets

Learning GFlowNets from partial episodes for improved convergence and
  stability

Maximum entropy GFlowNets with soft Q-learning


Automated 3D cell detection in very large images

A deep learning algorithm for 3D cell detection in whole mouse brain image datasets

Multisensory coding of angular head velocity in the retrosplenial cortex

Brain-wide analysis of the supraspinal connectome reveals anatomical correlates to functional recovery after spinal injury

The retrosplenial cortex combines internal and external cues to encode head velocity during navigation


Scaling Vision Transformers to 22 Billion Parameters

Revisiting the Calibration of Modern Neural Networks

Plex: Towards Reliability using Pretrained Large Model Extensions

Uncertainty Baselines: Benchmarks for Uncertainty & Robustness in Deep Learning

Compressive Visual Representations

Diversity and Generalization in Neural Network Ensembles

Trust in AI: Interpretability is not necessary or sufficient, while
  black-box interaction is necessary and sufficient

A Note on "Assessing Generalization of SGD via Disagreement"

Simplicial Embeddings in Self-Supervised Learning and Downstream
  Classification

Three Towers: Flexible Contrastive Learning with Pretrained Image Models


A library for mining of path-based representations of code (and more)

code2vec: Learning Distributed Representations of Code

A General Path-Based Representation for Predicting Program Properties

Precise Learning of Source Code Contextual Semantics via Hierarchical Dependence Structure and Graph Attention Networks

Journal of systems and software/The Journal of systems and software

Using Distributed Representation of Code for Bug Detection.

A Comparison of Code Embeddings and Beyond

Exploiting Token and Path-based Representations of Code for Identifying Security-Relevant Commits

Old but Gold: Reconsidering the value of feedforward learners for
  software analytics

Evaluation of Contrastive Learning with Various Code Representations for Code Clone Detection


Parallel nested sampling

Properties and Astrophysical Implications of the 150 M Binary Black Hole Merger GW190521

Time-domain effective-one-body gravitational waveforms for coalescing compact binaries with nonprecessing spins, tides, and self-spin effects

Analysis of Ringdown Overtones in GW150914

Stellar binary black holes in the LISA band: a new class of standard sirens

Monthly Notices of the Royal Astronomical Society

Constraining astrophysical observables of galaxy and supermassive black hole binary mergers using pulsar timing arrays

Enhancing modified gravity detection from gravitational-wave observations using the parametrized ringdown spin expansion coeffcients formalism

No tension between assembly models of super massive black hole binaries and pulsar observations

Probing the assembly history and dynamical evolution of massive black hole binaries with pulsar timing arrays

Constraints on Kerr-Newman black holes from merger-ringdown gravitational-wave observations

Analytic family of post-merger template waveforms


This is a fork of the Cooja network simulator from contiki-os/contiki

Energy-Efficient Message Bundling with Delay and Synchronization Constraints in Wireless Sensor Networks

Development and Validation of an ISA100.11a Simulation Model for Accurate Industrial WSN Planning and Deployment

DRiPLOF: An RPL Extension for Multi-Interface Wireless Sensor Networks in Interference-Prone Environments


Build system for the RTX-KG2 biomedical knowledge graph, part of the ARAX reasoning system (https://github.com/RTXTeam/RTX)

RTX-KG2: a system for building a semantically standardized knowledge graph for translational biomedicine

KGML-xDTD: A Knowledge Graph-based Machine Learning Framework for Drug Treatment Prediction and Mechanism Description


A fast stabilizer circuit library.

Suppressing quantum errors by scaling a surface code logical qubit

A Fault-Tolerant Honeycomb Memory

Benchmarking the Planar Honeycomb Code

Relaxing Hardware Requirements for Surface Code Circuits using Time-dynamics

A Pair Measurement Surface Code on Pentagons

Microarchitectures for Heterogeneous Superconducting Quantum Computers


Code for the habitat challenge

Habitat: A Platform for Embodied AI Research

Gibson Env: Real-World Perception for Embodied Agents

On Evaluation of Embodied Navigation Agents

Object Goal Navigation using Goal-Oriented Semantic Exploration

Habitat 2.0: Training Home Assistants to Rearrange their Habitat

Habitat-Matterport 3D Dataset (HM3D): 1000 Large-scale 3D Environments
  for Embodied AI

ObjectNav Revisited: On Evaluation of Embodied Agents Navigating to Objects.

Sim2Real Predictivity: Does Evaluation in Simulation Predict Real-World Performance?

International Conference on Robotics and Automation

Habitat-Matterport 3D Semantics Dataset


ARTIC SARS-CoV-2 workflow and reporting

Rapid epidemic expansion of the SARS-CoV-2 Omicron variant in southern Africa

Multiple pathways for SARS-CoV-2 resistance to nirmatrelvir

bioRxiv : the preprint server for biology

Emergence of E484K Mutation Following Bamlanivimab Monotherapy among High-Risk Patients Infected with the Alpha Variant of SARS-CoV-2

Genomic Surveillance Reveals the Rapid Expansion of the XBB Lineage among Circulating SARS-CoV-2 Omicron Lineages in Southeastern Wisconsin, USA

Detection of High Level of Co-Infection and the Emergence of Novel SARS CoV-2 Delta-Omicron and Omicron-Omicron Recombinants in the Epidemiological Surveillance of Andalusia

International journal of molecular sciences


The OLD Gazebo Simulation repository.

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

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

New Era in Cultural Heritage Preservation: Cooperative Aerial Autonomy


Modelica BuildingSystems library


Efficient computing methods developed by Huawei Noah's Ark Lab

Data-Free Learning of Student Networks

Data-Free Knowledge Distillation for Deep Neural Networks

ReNAS: Relativistic Evaluation of Neural Architecture Search

Data-Free Knowledge Distillation For Image Super-Resolution

AdaBin: Improving Binary Neural Networks with Adaptive Binary Sets

Learning Student Networks in the Wild

Masked Image Modeling with Local Multi-Scale Reconstruction

Multiscale Positive-Unlabeled Detection of AI-Generated Texts

Instance-Aware Dynamic Neural Network Quantization

Gold-YOLO: Efficient Object Detector via Gather-and-Distribute Mechanism


Patator is a multi-purpose brute-forcer, with a modular design and a flexible usage.

Flow-Based Web Application Brute-Force Attack and Compromise Detection

Journal of network and systems management

In Search of netUnicorn: A Data-Collection Platform to Develop Generalizable ML Models for Network Security Problems

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

netFound: Foundation Model for Network Security


WFA-lib: Wavefront alignment algorithm library v2

Fast gap-affine pairwise alignment using the wavefront algorithm

WFA-GPU: Gap-affine pairwise alignment using GPUs

Scrooge: a fast and memory-frugal genomic sequence aligner for CPUs, GPUs, and ASICs

Block Aligner: an adaptive SIMD-accelerated aligner for sequences and position-specific scoring matrices


Clone a voice in 5 seconds to generate arbitrary speech in real-time

Tacotron: Towards End-to-End Speech Synthesis

Generalized End-to-End Loss for Speaker Verification

Efficient Neural Audio Synthesis

Transfer Learning from Speaker Verification to Multispeaker Text-To-Speech Synthesis

Preech: A System for Privacy-Preserving Speech Transcription

Learning Efficient Representations for Fake Speech Detection

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

"Hello, It's Me": Deep Learning-based Speech Synthesis Attacks in the Real World

Conference on Computer and Communications Security

A Text-to-Speech Pipeline, Evaluation Methodology, and Initial Fine-Tuning Results for Child Speech Synthesis

Lip-to-Speech Synthesis for Arbitrary Speakers in the Wild

Proceedings of the 30th ACM International Conference on Multimedia

Voice Cloning: a Multi-Speaker Text-to-Speech Synthesis Approach based on Transfer Learning.


kapture is a file format as well as a set of tools for manipulating datasets, and in particular Visual Localization and Structure from Motion data.

D2-Net: A Trainable CNN for Joint Description and Detection of Local Features

R2D2: Repeatable and Reliable Detector and Descriptor

Robust Image Retrieval-based Visual Localization using Kapture

Large-scale Localization Datasets in Crowded Indoor Spaces


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

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

Interspeech 2021 Deep Noise Suppression Challenge

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

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

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

ICASSP 2022 Acoustic Echo Cancellation Challenge

Subjective Evaluation of Noise Suppression Algorithms in Crowdsourcing

Crowdsourcing approach for subjective evaluation of echo impairment

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

A Crowdsourcing Extension of the ITU-T Recommendation P.835 with Validation.


Full-Length Alternative Isoform analysis of RNA

A comprehensive examination of Nanopore native RNA sequencing for characterization of complex transcriptomes

Native molecule sequencing by nano-ID reveals synthesis and stability of RNA isoforms

Translational repression of NMD targets by GIGYF2 and EIF4E2

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

A high-quality reference genome for the fission yeastSchizosaccharomyces osmophilus

Alternative mRNA Splicing Controls the Functions of the Histone H3K27 Demethylase UTX/KDM6A

Detecting haplotype-specific transcript variation in long reads with FLAIR2

Full-length transcript alterations in human bronchial epithelial cells withU2AF1S34F mutations

Blockade of pro-fibrotic response mediated by the miR-143/-145 cluster prevents targeted therapy-induced phenotypic plasticity and resistance in melanoma


NASA PVS Library of Formal Developments

Alignment-based Translations Across Formal Systems Using Interface Theories

Teaching Interactive Proofs to Mathematicians

Lebesgue Induction and Tonelli's Theorem in Coq


Python package built to ease deep learning on graph, on top of existing DL frameworks.

Training Graph Neural Networks with 1000 Layers

Boost then Convolve: Gradient Boosting Meets Graph Neural Networks


Astronomical data platform for the Zwicky Transient Facility.

The Tidal Disruption Event AT2021ehb: Evidence of Relativistic Disk Reflection, and Rapid Evolution of the Disk–Corona System

New Modules for the SEDMachine to Remove Contaminations from Cosmic Rays and Non-target Light: byecr and contsep

Publications of the Astronomical Society of the Pacific

SNIascore: Deep-learning Classification of Low-resolution Supernova Spectra

A Data Science Platform to Enable Time-domain Astronomy

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

Tails: Chasing Comets with the Zwicky Transient Facility and Deep Learning

In Search of Short Gamma-Ray Burst Optical Counterparts with the Zwicky Transient Facility

Autonomous Real-Time Science-Driven Follow-up of Survey Transients


Colorblind-Friendly Color Maps for R

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

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

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

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

Characterization and evolutionary origin of novel C2H2 zinc finger protein (ZNF648) required for both erythroid and megakaryocyt differentiation in humans

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

Temporal Comparison of Microbial Community Structure in an Australian Winery

Environmental Controls of Size Distribution of Modern Planktonic Foraminifera in the Tropical Indian Ocean


A PyTorch library and evaluation platform for end-to-end compression research

End-to-end Optimized Image Compression

Variational image compression with a scale hyperprior

Joint Autoregressive and Hierarchical Priors for Learned Image Compression

CompressAI: a PyTorch library and evaluation platform for end-to-end compression research

Deep Contextual Video Compression

ELIC: Efficient Learned Image Compression with Unevenly Grouped Space-Channel Contextual Adaptive Coding

Learned Image Compression with Mixed Transformer-CNN Architectures

Recent Standard Development Activities on Video Coding for Machines

Lossy Image Compression with Quantized Hierarchical VAEs

EVC: Towards Real-Time Neural Image Compression with Mask Decay


Your Unified Reader

The Fast Radio Burst FRB 20201124A in a star forming region: constraints to the progenitor and multiwavelength counterparts

The first seven months of the 2020 X-ray outburst of the magnetar SGR J1935+2154

The northern cross fast radio burst project – II. Monitoring of repeating FRB 20180916B, 20181030A, 20200120E, and 20201124A

Monthly notices of the Royal Astronomical Society

A broad survey of spectro-temporal properties from FRB 20121102A


Privacy Meter: An open-source library to audit data privacy in statistical and machine learning algorithms.

Comprehensive Privacy Analysis of Deep Learning: Passive and Active White-box Inference Attacks against Centralized and Federated Learning

Membership Inference Attacks From First Principles

Enhanced Membership Inference Attacks against Machine Learning Models

Survey on Federated Learning Threats: concepts, taxonomy on attacks and
  defences, experimental study and challenges

ML Privacy Meter: Aiding Regulatory Compliance by Quantifying the Privacy Risks of Machine Learning

GRAIMATTER Green Paper: Recommendations for disclosure control of
  trained Machine Learning (ML) models from Trusted Research Environments
  (TREs)

Deepfakes, Phrenology, Surveillance, and More! A Taxonomy of AI Privacy
  Risks


Quantitative Pathology

CD11c-CD8 Spatial Cross Presentation: A Novel Approach to Link Immune Surveillance and Patient Survival in Soft Tissue Sarcoma

Regulatory FOXP3+ T cells in uterine sarcomas are associated with favorable prognosis, low extracellular matrix expression and reduced YAP activation


PEGASUS: Pre-training with Extracted Gap-sentences for Abstractive Summarization

A Divide-and-Conquer Approach to the Summarization of Long Documents

Co-Writing Screenplays and Theatre Scripts with Language Models: Evaluation by Industry Professionals

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

Investigating Efficiently Extending Transformers for Long Input Summarization

A Thorough Evaluation of Task-Specific Pretraining for Summarization

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


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

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

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

Stellar Population Inference with Prospector

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

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

A Theory for the Variation of Dust Attenuation Laws in Galaxies

A Tale of Two DIGs: The relative role of HII regions and low-mass hot evolved stars in powering the diffuse ionised gas in PHANGS-MUSE galaxies

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

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

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


WashU Epigenome Browser

WashU Epigenome Browser update 2022

The qBED track: a novel genome browser visualization for point processes

Comparing genomic and epigenomic features across species using the WashU Comparative Epigenome Browser


A fast, first order open-access simulator that integrates single plant growth models with inter-plant competition for sun light and water.

Simulating Polyculture Farming to Tune Automation Policies for Plant Diversity and Precision Irrigation

Conference on Automation Science and Engineering

Learning Seed Placements and Automation Policies for Polyculture Farming with Companion Plants

Simulating Polyculture Farming to Learn Automation Policies for Plant Diversity and Precision Irrigation

IEEE transactions on automation science and engineering

AlphaGarden: Learning to Autonomously Tend a Polyculture Garden


Easily train your own text-generating neural network of any size and complexity on any text dataset with a few lines of code.

Towards Debiasing Sentence Representations

Constrained Language Models for Interactive Poem Generation

LREC 2022: THIRTEEN INTERNATIONAL CONFERENCE ON LANGUAGE RESOURCES AND EVALUATION


QALD sources (data, website, documents, scripts) https://qald.aksw.org/

ChatGPT versus Traditional Question Answering for Knowledge Graphs:
  Current Status and Future Directions Towards Knowledge Graph Chatbots

Improving Zero-Shot Cross-lingual Transfer for Multilingual Question Answering over Knowledge Graph

North American Chapter of the Association for Computational Linguistics

The Qanary Ecosystem: Getting New Insights by Composing Question Answering Pipelines

Maximum Bayes Smatch Ensemble Distillation for AMR Parsing

A Universal Question-Answering Platform for Knowledge Graphs

Transformer based Natural Language Generation for Question-Answering

Proceedings of the 13th International Conference on Natural Language Generation

Bio-SODA: Enabling Natural Language Question Answering over Knowledge Graphs without Training Data

What is in the KGQA Benchmark Datasets? Survey on Challenges in Datasets for Question Answering on Knowledge Graphs

Sanitizing Synthetic Training Data Generation for Question Answering over Knowledge Graphs

International Conference on the Theory of Information Retrieval

QueDI: From Knowledge Graph Querying to Data Visualization


Example RISC-V Out-of-Order/Superscalar Processor Performance Core and MSS Model


Quantized Neural Networks (QNNs) on PYNQ

FINN: A Framework for Fast, Scalable Binarized Neural Network Inference

Symposium on Field Programmable Gate Arrays

FINN-R: An End-to-End Deep-Learning Framework for Fast Exploration of Quantized Neural Networks

Toolflows for Mapping Convolutional Neural Networks on FPGAs: A Survey and Future Directions

DAC-SDC Low Power Object Detection Challenge for UAV Applications

FAT: Training Neural Networks for Reliable Inference Under Hardware Faults

Memory-Efficient Dataflow Inference for Deep CNNs on FPGA

A Threshold Neuron Pruning for a Binarized Deep Neural Network on an FPGA

IEICE transactions on information and systems

A Deep Learning Accelerator Based on a Streaming Architecture for Binary Neural Networks

Evolutionary Bin Packing for Memory-Efficient Dataflow Inference Acceleration on FPGA

Genetic and Evolutionary Computation Conference


Time series aggregation module (tsam). Determines typical operation periods or dereases the temporal resolution.  Accelerates model or experiment runs.

Time series aggregation for energy system design: Modeling seasonal storage

Typical periods or typical time steps? A multi-model analysis to determine the optimal temporal aggregation for energy system models

Evaluation of Temporal Complexity Reduction Techniques Applied to Storage Expansion Planning in Power System Models

Reducing Computational Load for Mixed Integer Linear Programming: An Example for a District and an Island Energy System

The Pareto-optimal temporal aggregation of energy system models

Low-carbon lithium extraction makes deep geothermal plants cost-competitive in future energy systems


ALBERT: A Lite BERT for Self-supervised Learning of Language Representations

Pre-trained models for natural language processing: A survey

ProtTrans: Towards Cracking the Language of Life's Code Through
  Self-Supervised Deep Learning and High Performance Computing

CLUE: A Chinese Language Understanding Evaluation Benchmark

A Survey on Text Classification: From Shallow to Deep Learning

A Comprehensive Survey of AI-Generated Content (AIGC): A History of
  Generative AI from GAN to ChatGPT

Token-Aware Virtual Adversarial Training in Natural Language Understanding

Deep Learning-Based Natural Language Processing for Screening Psychiatric Patients

Event Clustering within News Articles

How to decay your learning rate


A multi-programming language benchmark for evaluating the performance of large language model of code.

StarCoder: may the source be with you!

SantaCoder: don't reach for the stars!

MultiPL-E: A Scalable and Polyglot Approach to Benchmarking Neural Code Generation

IEEE transactions on software engineering

MultiPL-E: A Scalable and Extensible Approach to Benchmarking Neural
  Code Generation

Deep Learning Based Code Generation Methods: A Literature Review

Neural Machine Translation for Code Generation


Workflow Description Language developer tools & local runner

A simple guide to de novo transcriptome assembly and annotation

Rapid repeat infection of SARS-CoV-2 by two highly distinct delta-lineage viruses

TheiaEuk: a species-agnostic bioinformatics workflow for fungal genomic characterization


Source code of openLCA


GBBS: Graph Based Benchmark Suite

Theoretically Efficient Parallel Graph Algorithms Can Be Fast and Scalable

SPAA'18: PROCEEDINGS OF THE 30TH ACM SYMPOSIUM ON PARALLELISM IN ALGORITHMS AND ARCHITECTURES

Sage: Parallel Semi-Asymmetric Graph Algorithms for NVRAMs

Parallel Batch-Dynamic k-Clique Counting

Parallel Index-Based Structural Graph Clustering and Its Approximation

SIGMOD '21: PROCEEDINGS OF THE 2021 INTERNATIONAL CONFERENCE ON MANAGEMENT OF DATA

Hierarchical Agglomerative Graph Clustering in Nearly-Linear Time

Semi-Asymmetric Parallel Graph Algorithms for NVRAMs

A Block-Based Triangle Counting Algorithm on Heterogeneous Environments


:earth_americas: Verification of weather and climate forecasts :earth_africa:

Trivial improvements of predictive skill due to direct reconstruction
of global carbon cycle


Nested Sampling code

Constant-pressure nested sampling with atomistic dynamics

On the performance of interatomic potential models of iron: Comparison of the phase diagrams

Nested Sampling of Materials’ Potential Energy Surfaces: Case Study of Zirconium

Carbon phase diagram with empirical and machine learned interatomic
  potentials

Neural-Network Force Field Backed Nested Sampling: Study of the Silicon
  p-T Phase Diagram


phy: interactive visualization and manual spike sorting of large-scale ephys data

Single-trial neural dynamics are dominated by richly varied movements

Distributed coding of choice, action and engagement across the mouse brain

Cortical pattern generation during dexterous movement is input-driven

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

Sensory coding and the causal impact of mouse cortex in a visual decision

The neurons that restore walking after paralysis

Bidirectional perisomatic inhibitory plasticity of a Fos neuronal network

The sifting of visual information in the superior colliculus

Cerebellar involvement in an evidence-accumulation decision-making task

A cerebellar-thalamocortical pathway drives behavioral context-dependent movement initiation


fastFM: A Library for Factorization Machines

Content-aware Neural Hashing for Cold-start Recommendation

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

HitFraud: A Broad Learning Approach for Collective Fraud Detection in Heterogeneous Information Networks

Modeling Game Avatar Synergy and Opposition through Embedding in
  Multiplayer Online Battle Arena Games


This is a webshell open source project

Mitigating Webshell Attacks through Machine Learning Techniques

A Web Shell Detection Method Based on Multiview Feature Fusion

WebShell Attack Detection Based on a Deep Super Learner

WTA: A Static Taint Analysis Framework for PHP Webshell

Research on WebShell Detection Method Based on Regularized Neighborhood Component Analysis (RNCA)

BERT-Embedding-Based JSP Webshell Detection on Bytecode Level Using XGBoost


Framework for indexing and querying ocean-sea ice model output.

Surface Heating Steers Planetary-Scale Ocean Circulation


Contextually-keyed word vectors

sense2vec - A Fast and Accurate Method for Word Sense Disambiguation In Neural Word Embeddings

Automated Refugee Case Analysis: A NLP Pipeline for Supporting Legal Practitioners