Code and annotations for the Tabula Muris single-cell transcriptomic dataset.

Endothelial heterogeneity across distinct vascular beds during homeostasis and inflammation

Decomposing Cell Identity for Transfer Learning across Cellular Measurements, Platforms, Tissues, and Species

Graphia: A platform for the graph-based visualisation and analysis of complex data

Graphia: A platform for the graph-based visualisation and analysis of high dimensional data

Mammary cell gene expression atlas links epithelial cell remodeling events to breast carcinogenesis

Investigating transcriptome-wide sex dimorphism by multi-level analysis of single-cell RNA sequencing data in ten mouse cell types

MichiGAN: sampling from disentangled representations of single-cell data using generative adversarial networks

Heightened apoptotic priming of vascular cells across tissues and life span predisposes them to cancer therapy–induced toxicities

An accessible, interactive GenePattern Notebook for analysis and exploration of single-cell transcriptomic data


RoBO: a Robust Bayesian Optimization framework

Fast Bayesian Optimization of Machine Learning Hyperparameters on Large Datasets

Benchmark and Survey of Automated Machine Learning Frameworks

RoBO: A Flexible and Robust Bayesian Optimization Framework in Python

Fast Hyperparameter Tuning using Bayesian Optimization with Directional Derivatives

Practical Bayesian Optimization for Variable Cost Objectives

Warm Starting CMA-ES for Hyperparameter Optimization

An analysis of deep neural networks for predicting trends in time series data

Weighting Is Worth the Wait: Bayesian Optimization with Importance Sampling

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


Make some beautiful corner plots

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

Hierarchical analysis of gravitational-wave measurements of binary black hole spin–orbit misalignments

Monthly Notices of the Royal Astronomical Society

HEK. VI. On the Dearth of Galilean Analogs in Kepler, and the Exomoon Candidate Kepler-1625b I

The mass-sheet degeneracy and time-delay cosmography: analysis of the strong lens RXJ1131-1231

Journal of Cosmology and Astroparticle Physics

Lensing substructure quantification in RXJ1131-1231: a 2keV lower bound on dark matter thermal relic mass

Journal of cosmology and astroparticle physics

β PICTORIS’ INNER DISK IN POLARIZED LIGHT AND NEW ORBITAL PARAMETERS FOR β PICTORIS b

THE DISTANCE DUALITY RELATION FROM STRONG GRAVITATIONAL LENSING

Extreme jet ejections from the black hole X-ray binary V404 Cygni

A comparison of exoplanet spectroscopic retrieval tools

Monthly notices of the Royal Astronomical Society

Improving time-delay cosmography with spatially resolved kinematics


Remote protein homology detection suite.

Highly accurate protein structure prediction with AlphaFold

HH-suite3 for fast remote homology detection and deep protein annotation

Inferring interaction partners from protein sequences

Rotamer-free protein sequence design based on deep learning and self-consistency

Improvement in Protein Domain Identification Is Reached by Breaking Consensus, with the Agreement of Many Profiles and Domain Co-occurrence

ProSPr: Democratized Implementation of Alphafold Protein Distance Prediction Network

Complete atomic structure of a native archaeal cell surface

Unraveling the functional dark matter through global metagenomics

Ensembles generated from crystal structures of single distant homologues solve challenging molecular-replacement cases in AMPLE

Acta crystallographica. Section D, Structural biology

Proteome-scale Deployment of Protein Structure Prediction Workflows on the Summit Supercomputer


Library for Semi-Automated Data Science

Lale: Consistent Automated Machine Learning

Mining Documentation to Extract Hyperparameter Schemas

An Empirical Study of Modular Bias Mitigators and Ensembles

Type Safety with JSON Subschema

Type-Driven Automated Learning with Lale

Gradual AutoML using Lale

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

A Suite of Fairness Datasets for Tabular Classification


A framework for evaluating models on their alignment to brain and behavioral measurements (50+ benchmarks)

Brain-Score: Which Artificial Neural Network for Object Recognition is most Brain-Like?

Unsupervised neural network models of the ventral visual stream


A micro-service reference test application for model extraction, cloud management, energy efficiency, power prediction, single- and multi-tier auto-scaling

Microservices: A Performance Tester's Dream or Nightmare?

PROCEEDINGS OF THE ACM/SPEC INTERNATIONAL CONFERENCE ON PERFORMANCE ENGINEERING (ICPE'20)

CREW: Cost and Reliability aware Eagle‐Whale optimiser for service placement in Fog

Detecting Parametric Dependencies for Performance Models Using Feature Selection Techniques

Modeling, Analysis, and Simulation On Computer and Telecommunication Systems

Incremental Calibration of Architectural Performance Models with Parametric Dependencies

International Conference on Software Architecture

A Framework for Satisfying the Performance Requirements of Containerized Software Systems Through Multi-Versioning

Automating serverless deployments for DevOps organizations

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

SuanMing: Explainable Prediction of Performance Degradations in Microservice Applications

PROCEEDINGS OF THE ACM/SPEC INTERNATIONAL CONFERENCE ON PERFORMANCE ENGINEERING (ICPE '21)

Trace Link Recovery for Software Architecture Documentation

Characterizing the Scale-Up Performance of Microservices using TeaStore

IEEE International Symposium on Workload Characterization

Locating Performance Regression Root Causes in the Field Operations of Web-Based Systems: An Experience Report

IEEE transactions on software engineering


Distributed Graph Database

The Train Benchmark: cross-technology performance evaluation of continuous model queries

An Automatically Created Novel Bug Dataset and its Validation in Bug Prediction

Fuzzy Random Walkers with Second Order Bounds: An Asymmetric Analysis

Study on Resource Efficiency of Distributed Graph Processing

Modeling Corruption in Eventually-Consistent Graph Databases

Relationships between design problem agglomerations and concerns having types and domains of software as transverse dimensions


Pythonic particle-based (super-droplet) warm-rain/aqueous-chemistry cloud microphysics package with box, parcel & 1D/2D prescribed-flow examples in Python, Julia and Matlab

On the Design of Monte-Carlo Particle Coagulation Solver Interface: A CPU/GPU Super-Droplet Method Case Study with PySDM


A Julia Basket of Hand-Picked Krylov Methods

BiLQ: An Iterative Method for Nonsymmetric Linear Systems with a Quasi-Minimum Error Property

Resolving entropy growth from iterative methods

TriCG and TriMR: Two Iterative Methods for Symmetric Quasi-Definite Systems

GPMR: An Iterative Method for Unsymmetric Partitioned Linear Systems


oneCCL Bindings for Pytorch*

DistGNN: Scalable Distributed Training for Large-Scale Graph Neural
  Networks

Optimizing Deep Learning Recommender Systems Training on CPU Cluster Architectures


(New version is out: https://github.com/hpi-xnor/BMXNet-v2) BMXNet: An Open-Source Binary Neural Network Implementation Based on MXNet

XNOR-Net: ImageNet Classification Using Binary Convolutional Neural Networks

Binarized Neural Networks

DoReFa-Net: Training Low Bitwidth Convolutional Neural Networks with Low Bitwidth Gradients

Machine Learning at the Network Edge: A Survey


The analysis repository for the Open Pediatric Brain Tumor Atlas Project

Macrophages in SHH subgroup medulloblastoma display dynamic heterogeneity that varies with treatment modality

Unsupervised machine learning using K-means identifies radiomic subgroups of pediatric low-grade gliomas that correlate with key molecular markers

OpenPBTA: The Open Pediatric Brain Tumor Atlas

An RNA seq-based reference landscape of human normal and neoplastic brain

bioRxiv : the preprint server for biology

Somatic structural variation signatures in pediatric brain tumors

medRxiv : the preprint server for health sciences


MTEB: Massive Text Embedding Benchmark

C-Pack: Packaged Resources To Advance General Chinese Embedding

MTEB: Massive Text Embedding Benchmark

Jina Embeddings 2: 8192-Token General-Purpose Text Embeddings for Long
  Documents


An all-in-one toolkit for computer vision

Deep Residual Learning for Image Recognition

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

Swin Transformer: Hierarchical Vision Transformer using Shifted Windows

A Simple Framework for Contrastive Learning of Visual Representations

Momentum Contrast for Unsupervised Visual Representation Learning

End-to-End Object Detection with Transformers

FCOS: Fully Convolutional One-Stage Object Detection

Fixed-Confidence Guarantees for Bayesian Best-Arm Identification

Training data-efficient image transformers & distillation through attention

Masked Autoencoders Are Scalable Vision Learners


Public malware techniques used in the wild: Virtual Machine, Emulation, Debuggers, Sandbox detection.

Designing Robust API Monitoring Solutions

Decoding the Secrets of Machine Learning in Malware Classification: A
  Deep Dive into Datasets, Feature Extraction, and Model Performance

HyperDbg: Reinventing Hardware-Assisted Debugging

Evasive Windows Malware: Impact on Antiviruses and Possible Countermeasures

PROCEEDINGS OF THE 17TH INTERNATIONAL JOINT CONFERENCE ON E-BUSINESS AND TELECOMMUNICATIONS (SECRYPT), VOL 1


An easy-to-use federated learning platform

FederatedScope: A Flexible Federated Learning Platform for Heterogeneity

pFL-Bench: A Comprehensive Benchmark for Personalized Federated Learning

FederatedScope-GNN: Towards a Unified, Comprehensive and Efficient Package for Federated Graph Learning

FederatedScope-LLM: A Comprehensive Package for Fine-tuning Large
  Language Models in Federated Learning

FedHPO-B: A Benchmark Suite for Federated Hyperparameter Optimization

Efficient Personalized Federated Learning via Sparse Model-Adaptation

Revisiting Personalized Federated Learning: Robustness Against Backdoor Attacks

A Benchmark for Federated Hetero-Task Learning

Federated Full-Parameter Tuning of Billion-Sized Language Models with
  Communication Cost under 18 Kilobytes

Collaborating Heterogeneous Natural Language Processing Tasks via
  Federated Learning


Toolbox for Bayesian Optimization and Model-Based Optimization in R

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

mlrMBO: A Modular Framework for Model-Based Optimization of Expensive Black-Box Functions

Better trees: an empirical study on hyperparameter tuning of classification decision tree induction algorithms

Model-based optimization of subgroup weights for survival analysis

Developmental Bayesian Optimization of Black-Box with Visual Similarity-Based Transfer Learning

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


Accurate sample inference from amplicon data with single nucleotide resolution

DADA2: High-resolution sample inference from Illumina amplicon data

High-throughput amplicon sequencing of the full-length 16S rRNA gene with single-nucleotide resolution

The use of next generation sequencing for improving food safety: Translation into practice

Host genetic selection for cold tolerance shapes microbiome composition and modulates its response to temperature

Amplicon Sequence Variants Artificially Split Bacterial Genomes into Separate Clusters

Withdrawn as duplicate: Dysbiosis and early mortality in zebrafish larvae exposed to subclinical concentrations of streptomycin

Global radiation in a rare biosphere soil diatom

Effect of Dietary Carbohydrate-to-Protein Ratio on Gut Microbiota in Atlantic Salmon (Salmo salar)

Animals : an open access journal from MDPI

Development of a Blocking Primer to Inhibit the PCR Amplification of the 18S rDNA Sequences of Litopenaeus vannamei and Its Efficacy in Crassostrea hongkongensis

The Influences of Bioinformatics Tools and Reference Databases in Analyzing the Human Oral Microbial Community


Documentation for Crossref's REST API. For questions or suggestions, see https://community.crossref.org/

Evidence of Open Access of scientific publications in Google Scholar: a large-scale analysis

Crossref: The sustainable source of community-owned scholarly metadata

A study of institutional spending on open access publication fees in Germany

Comparing Published Scientific Journal Articles to Their Pre-print Versions

Do altmetrics work for assessing research quality?

A High Order Accurate Bound-Preserving Compact Finite Difference Scheme for Scalar Convection Diffusion Equations

Tortured phrases: A dubious writing style emerging in science. Evidence
  of critical issues affecting established journals

Changes in evidence for studies assessing interventions for COVID-19 reported in preprints: meta-research study

How many preprints have actually been printed and why: a case study of computer science preprints on arXiv

Using altmetrics for detecting impactful research in quasi-zero-day time-windows: the case of COVID-19


Program for analysing NGS data.

Reconstructing the Deep Population History of Central and South America

Tracking Five Millennia of Horse Management with Extensive Ancient Genome Time Series

Interspecific Gene Flow Shaped the Evolution of the Genus Canis

The Genomic Footprints of the Fall and Recovery of the Crested Ibis

Authentication and Assessment of Contamination in Ancient DNA.

Methods in molecular biology (Clifton, N.J.)

Inferring Balancing Selection From Genome-Scale Data

Origin and mobility of Iron Age Gaulish groups in present-day France revealed through archaeogenomics

Testing the ‘caves as islands’ model in two cave-obligate invertebrates with a genomic approach


Contains the REMIND-specific routines for data and model output manipulation.


The overall codebase developed and used by the Vertebrate Resequencing group at the Sanger Institute

Epidemic of carbapenem-resistant Klebsiella pneumoniae in Europe is driven by nosocomial spread

Robust high-throughput prokaryote de novo assembly and improvement pipeline for Illumina data

Genomic insights into the 2016–2017 cholera epidemic in Yemen

The Emergence of Successful Streptococcus pyogenes Lineages through Convergent Pathways of Capsule Loss and Recombination Directing High Toxin Expression

Rapid multi-locus sequence typing direct from uncorrected long reads using Krocus

Methodology for Whole-Genome Sequencing of Methicillin-Resistant Staphylococcus aureus Isolates in a Routine Hospital Microbiology Laboratory

Comparative genomics identifies potential virulence factors in Clostridium tertium and C. paraputrificum

Contrasting approaches to genome-wide association studies impact the detection of resistance mechanisms in Staphylococcus aureus

Circulation of enterotoxigenic Escherichia coli (ETEC) isolates expressing CS23 from the environment to clinical settings


Official Kaggle API

Vamsa: Automated Provenance Tracking in Data Science Scripts

Vamsa: Tracking Provenance in Data Science Scripts.

Can Deep Neural Networks Predict Data Correlations from Column Names?

What is my data worth? From data properties to data value

UniTabE: A Universal Pretraining Protocol for Tabular Foundation Model in Data Science

UniPredict: Large Language Models are Universal Tabular Classifiers

Turbulence in Focus: Benchmarking Scaling Behavior of 3D Volumetric
  Super-Resolution with BLASTNet 2.0 Data


An awesome code differencing tool

Fine-grained and accurate source code differencing

International Conference on Automated Software Engineering

FixMiner: Mining relevant fix patterns for automated program repair

A Closer Look at Real-World Patches

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

IntelliMerge: a refactoring-aware software merging technique

Proceedings of the ACM on programming languages

PyART: Python API Recommendation in Real-Time

A Differential Testing Approach for Evaluating Abstract Syntax Tree Mapping Algorithms

Towards Software Analytics: Modeling Maintenance Activities.

SATDBailiff- Mining and Tracking Self-Admitted Technical Debt

ApacheJIT: A Large Dataset for Just-In-Time Defect Prediction

Spork: Structured Merge for Java With Formatting Preservation


trends.earth - measure land change


A new data structure for accurate on-line accumulation of rank-based statistics such as quantiles and trimmed means

Computing Extremely Accurate Quantiles Using t-Digests

Moment-based quantile sketches for efficient high cardinality aggregation queries

On the Runtime-Efficacy Trade-off of Anomaly Detection Techniques for Real-Time Streaming Data

QDS-COVID: A visual analytics system for interactive exploration of millions of COVID-19 healthcare records in Brazil

Circllhist - A Log-Linear Histogram Data Structure for IT Infrastructure Monitoring.

Asymmetric scale functions for t-digests


Key/Value Datastore for Persistent Memory

Basic Performance Measurements of the Intel Optane DC Persistent Memory
  Module

An Empirical Guide to the Behavior and Use of Scalable Persistent Memory.

A High-Performance Persistent Memory Key-Value Store with Near-Memory Compute.

WITCHER : Detecting Crash Consistency Bugs in Non-volatile Memory
  Programs

InK: In-Kernel Key-Value Storage with Persistent Memory


Julia package for tensor contractions and related operations

Hand-waving and interpretive dance: an introductory course on tensor networks

Journal of physics. A, Mathematical and theoretical

Developments in the Tensor Network — from Statistical Mechanics to Quantum Entanglement

QuantumInformation.jl—A Julia package for numerical computation in quantum information theory

Numerical evaluation of spin foam amplitudes beyond simplices

TeNeS: Tensor network solver for quantum lattice systems

Highly accurate electronic structure of metallic solids from
  coupled-cluster theory with nonperturbative triple excitations


Easily turn large sets of image urls to an image dataset. Can download, resize and package 100M urls in 20h on one machine.

LAION-5B: An open large-scale dataset for training next generation
  image-text models

LAION-400M: Open Dataset of CLIP-Filtered 400 Million Image-Text Pairs

DataComp: In search of the next generation of multimodal datasets

Poisoning Web-Scale Training Datasets is Practical

OBELICS: An Open Web-Scale Filtered Dataset of Interleaved Image-Text
  Documents

Data Forensics in Diffusion Models: A Systematic Analysis of Membership
  Privacy

DialogCC: An Automated Pipeline for Creating High-Quality Multi-Modal Dialogue Dataset

AToMiC: An Image/Text Retrieval Test Collection to Support Multimedia Content Creation

From Categories to Classifier: Name-Only Continual Learning by Exploring
  the Web


Grid2Op a testbed platform to model sequential decision making in power systems.

Reinforcement Learning for Selective Key Applications in Power Systems: Recent Advances and Future Challenges

Learning to run a Power Network Challenge: a Retrospective Analysis

Reinforcement Learning for Electricity Network Operation

Exploring grid topology reconfiguration using a simple deep reinforcement learning approach

Learning to run a power network with trust

PowerGym: A Reinforcement Learning Environment for Volt-Var Control in
  Power Distribution Systems

Deep Reinforcement Learning-Based Approach for Autonomous Power Flow Control Using Only Topology Changes

Power Grid Congestion Management via Topology Optimization with
  AlphaZero

Graph Neural Networks for Voltage Stability Margins With Topology Flexibilities

IEEE open access journal of power and energy

Managing power grids through topology actions: A comparative study between advanced rule-based and reinforcement learning agents


DP3: streaming processing pipeline for radio interferometric data

The AARTFAAC Cosmic Explorer: observations of the 21-cm power spectrum in the EDGES absorption trough

Monthly notices of the Royal Astronomical Society

Radio observations of HD 80606 near planetary periastron

Apercal—The Apertif calibration pipeline

Abell 1430: A merging cluster with exceptional diffuse radio emission

Pushing sub-arcsecond resolution imaging down to 30 MHz with the trans-European International LOFAR Telescope

ViCTORIA project: The LOFAR HBA Virgo Cluster Survey


Brood War API

MazeBase: A Sandbox for Learning from Games

Macro action selection with deep reinforcement learning in StarCraft

Combat Models for RTS Games

Multi-platform Version of StarCraft: Brood War in a Docker Container: Technical Report

Automatic Observer Script for StarCraft: Brood War Bot Games (technical report)

The Design Of "Stratega": A General Strategy Games Framework

Learning Macromanagement in Starcraft by Deep Reinforcement Learning

DeepFoldit -- A Deep Reinforcement Learning Neural Network Folding
  Proteins


Assembly and intrahost/low-frequency variant calling for viral samples

Adaptive immunity and neutralizing antibodies against SARS-CoV-2 variants of concern following vaccination in patients with cancer: the CAPTURE study

Monkeypox outbreak in Madrid (Spain): Clinical and virological aspects

A Founder Effect Led Early SARS-CoV-2 Transmission in Spain

Imported SARS-CoV-2 Variants of Concern Drove Spread of Infections across Kenya during the Second Year of the Pandemic

Functional immune responses against SARS-CoV-2 variants of concern after fourth COVID-19 vaccine dose or infection in patients with blood cancer

Performance of SARS-CoV-2 Antigen-Detecting Rapid Diagnostic Tests for Omicron and Other Variants of Concern

Reshi: Recommending Resources for Scientific Workflow Tasks on Heterogeneous Infrastructures

Genomic Analysis of West Nile Virus Lineage 1 Detected in Mosquitoes during the 2020–2021 Outbreaks in Andalusia, Spain

Novel Amplicon-Based Sequencing Approach to West Nile Virus

Metagenomic sequencing, molecular characterization, and Bayesian phylogenetics of imported type 2 vaccine-derived poliovirus, Spain, 2021

Frontiers in cellular and infection microbiology


EasyList filter subscription (EasyList, EasyPrivacy, EasyList Cookie, Fanboy's Social/Annoyances/Notifications Blocking List)

SpeedReader: Reader Mode Made Fast and Private

Actions speak louder than words: Semi-supervised learning for browser
  fingerprinting detection

Comparing Large-Scale Privacy and Security Notifications

Proceedings on Privacy Enhancing Technologies

Blocked or Broken? Automatically Detecting When Privacy Interventions Break Websites

An iterative technique to identify browser fingerprinting scripts

Quantifying Carbon Emissions due to Online Third-Party Tracking


Foundational Models for State-of-the-Art Speech and Text Translation

SeamlessM4T: Massively Multilingual & Multimodal Machine Translation

Seamless: Multilingual Expressive and Streaming Speech Translation

MuTox: Universal MUltilingual Audio-based TOXicity Dataset and Zero-shot
  Detector


Tools for keeping your cloud operating in top form. Chaos Monkey is a resiliency tool that helps applications tolerate random instance failures.

Localizing Faults in Cloud Systems

How bad can a bug get? an empirical analysis of software failures in the OpenStack cloud computing platform

Predicting Failures in Multi-Tier Distributed Systems

Enhancing Failure Propagation Analysis in Cloud Computing Systems

The Future of Software Quality Assurance

Report from GI-Dagstuhl Seminar 16394: Software Performance Engineering in the DevOps World

ThorFI: A Novel Approach for Network Fault Injection as a Service


Sum Product Flow: An Easy and Extensible Library for Sum-Product Networks

SPFlow: An Easy and Extensible Library for Deep Probabilistic Learning
  using Sum-Product Networks

Sum-product networks: A survey

Probabilistic Circuits That Know What They Don't Know


Containerized Automated Radio Astronomy Calibration (CARACal) pipeline

The flickering nuclear activity of Fornax A

AGN feeding and feedback in Fornax A: kinematical analysis of the multi-phase ISM

Radio footprints of a minor merger in the Shapley Supercluster: From supercluster down to galactic scales

GASP XXXVIII: The LOFAR-MeerKAT-VLA View on the Nonthermal Side of a Jellyfish Galaxy

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

HAL (Le Centre pour la Communication Scientifique Directe)

A MeerKAT-meets-LOFAR study of MS 1455.0 + 2232: a 590 kiloparsec 'mini'-halo in a sloshing cool-core cluster

A new look at old friends – I. Imaging classical radio galaxies with uGMRT and MeerKAT

Monthly Notices of the Royal Astronomical Society

The MPIfR-MeerKAT Galactic Plane survey I -- System setup and early
  results

Apercal—The Apertif calibration pipeline

The Interstellar Medium in the Environment of the Supernova-less Long-duration GRB 111005A

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


Vlasiator - ten letters you can count on

Vlasov methods in space physics and astrophysics

Living reviews in computational astrophysics

FORESAIL‐1 CubeSat Mission to Measure Radiation Belt Losses and Demonstrate Deorbiting

Journal of geophysical research. Space physics

Transmission of foreshock waves through Earth's bow shock

Cavitons and spontaneous hot flow anomalies in a hybrid-Vlasov global magnetospheric simulation

Non-locality of the Earth's quasi-parallel bow shock: injection of thermal protons in a hybrid-Vlasov simulation

Foreshock cavitons and spontaneous hot flow anomalies: a statistical study with a global hybrid-Vlasov simulation

Vlasov simulation of electrons in the context of hybrid global models: An eVlasiator approach

Magnetotail plasma eruptions driven by magnetic reconnection and kinetic instabilities


Repository for the Parallel Ice Sheet Model (PISM)

Contribution of the Greenland Ice Sheet to sea level over the next millennium

Antarctic sub-shelf melt rates via PICO

Glacial-cycle simulations of the Antarctic Ice Sheet with the Parallel Ice Sheet Model (PISM) – Part 1: Boundary conditions and climatic forcing

From cyclic ice streaming to Heinrich-like events: the grow-and-surge instability in the Parallel Ice Sheet Model

A salty deep ocean as a prerequisite for glacial termination

Dynamic regimes of the Greenland Ice Sheet emerging from interacting melt-elevation and glacial isostatic adjustment feedbacks

Simulating interactive ice sheets in the multi-resolution AWI-ESM 1.2: A case study using SCOPE 1.0

Future sea level contribution from Antarctica inferred from CMIP5 model forcing and its dependence on precipitation ansatz

From Heinrich Events to cyclic ice streaming: the grow-and-surge instability in the Parallel Ice Sheet Model

EGU General Assembly Conference Abstracts

Climate intervention on a high-emissions pathway could delay but not prevent West Antarctic Ice Sheet demise


Snorkel MeTaL: A framework for training models with multi-task weak supervision

An Overview of Multi-Task Learning in Deep Neural Networks

Snorkel: Rapid Training Data Creation with Weak Supervision

Data Programming: Creating Large Training Sets, Quickly

Training Complex Models with Multi-Task Weak Supervision


Import GTFS transit data into SQLite and query routes, stops, times, fares and more.


PyTorch Geometric Temporal: Spatiotemporal Signal Processing with Neural Machine Learning Models (CIKM 2021)

T-GCN: A Temporal Graph Convolutional Network for Traffic Prediction

Two-Stream Adaptive Graph Convolutional Networks for Skeleton-Based Action Recognition

GMAN: A Graph Multi-Attention Network for Traffic Prediction

Connecting the Dots: Multivariate Time Series Forecasting with Graph Neural Networks

EvolveGCN: Evolving Graph Convolutional Networks for Dynamic Graphs

Structured Sequence Modeling with Graph Convolutional Recurrent Networks

Adaptive Graph Convolutional Recurrent Network for Traffic Forecasting

A3T-GCN: Attention Temporal Graph Convolutional Network for Traffic Forecasting

Transfer Graph Neural Networks for Pandemic Forecasting


Implementation of paper - YOLOv7: Trainable bag-of-freebies sets new state-of-the-art for real-time object detectors

YOLOv7: Trainable Bag-of-Freebies Sets New State-of-the-Art for Real-Time Object Detectors

Benchmarking YOLOv5 and YOLOv7 models with DeepSORT for droplet tracking applications

The European physical journal. E, Soft matter and biological physics/The European physical journal. E, Soft matter

Optimizing YOLOv7 for Semiconductor Defect Detection

Road Damages Detection and Classification with YOLOv7

Automatic 3D Building Reconstruction from OpenStreetMap and LiDAR Using Convolutional Neural Networks

CropQuant-Air: an AI-powered system to enable phenotypic analysis of yield- and performance-related traits using wheat canopy imagery collected by low-cost drones

Diffusion to Confusion: Naturalistic Adversarial Patch Generation Based
  on Diffusion Model for Object Detector

Assessing the performance of YOLOv5, YOLOv6, and YOLOv7 in road defect detection and classification: a comparative study

Bulletin of Electrical Engineering and Informatics

Non-destructive detection of single-seed viability in maize using hyperspectral imaging technology and multi-scale 3D convolutional neural network

Practical Implementation of RIS-Aided Spectrum Sensing: A Deep
  Learning-Based Solution


EvoSuite - automated generation of JUnit test suites for Java classes

Automated Test Case Generation as a Many-Objective Optimisation Problem with Dynamic Selection of the Targets

IEEE transactions on software engineering

RESTful API Automated Test Case Generation

International Conference on Software Quality, Reliability and Security

Defect Prediction Guided Search-Based Software Testing

International Conference on Automated Software Engineering

Test smells 20 years later: detectability, validity, and reliability

An Experimental Assessment of Using Theoretical Defect Predictors to Guide Search-Based Software Testing

How good does a Defect Predictor need to be to guide Search-Based Software Testing?


Python & command-line tool to gather text on the Web: web crawling/scraping, extraction of text, metadata, comments

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

Meeting of the Association for Computational Linguistics

OpenWebMath: An Open Dataset of High-Quality Mathematical Web Text

From Web Crawl to Clean Register-Annotated Corpora

StarCoder 2 and The Stack v2: The Next Generation

DataScience-Polimi at SemEval-2022 Task 8: Stacking Language Models to Predict News Article Similarity

Proceedings of the 16th International Workshop on Semantic Evaluation (SemEval-2022)

A Reproducible IT-Blog Corpus

Synthetic Data Generation for Multilingual Domain-Adaptable Question Answering Systems

European Association for Machine Translation Conferences/Workshops

Structured Extraction of Terms and Conditions from German and English Online Shops

Proceedings of The Fifth Workshop on e-Commerce and NLP (ECNLP 5)


Python 3 framework to facilitate verification, validation and uncertainty quantification (VVUQ) for a wide variety of simulations.

EasyVVUQ: A Library for Verification, Validation and Uncertainty Quantification in High Performance Computing

VECMAtk: a scalable verification, validation and uncertainty quantification toolkit for scientific simulations

Philosophical transactions. Series A, Mathematical, physical, and engineering sciences

Uncertainty Quantification for Multiscale Fusion Plasma Simulations with VECMA Toolkit

Assessing uncertainties from physical parameters and modelling choices in an atmospheric large eddy simulation model

Epistemic and Aleatoric Uncertainty Quantification and Surrogate
  Modelling in High-Performance Multiscale Plasma Physics Simulations


ProjectQ: An open source software framework for quantum computing

Full-Stack, Real-System Quantum Computer Studies: Architectural Comparisons and Design Insights

Efficient Implementation of PRESENT and GIFT on Quantum Computers

QBugs: A Collection of Reproducible Bugs in Quantum Algorithms and a Supporting Infrastructure to Enable Controlled Quantum Software Testing and Debugging Experiments


Fast Python Collaborative Filtering for Implicit Feedback Datasets

Surprise: A Python library for recommender systems

Evaluating Stochastic Rankings with Expected Exposure

International Conference on Information and Knowledge Management

LensKit for Python: Next-Generation Software for Recommender Systems Experiments

Two-sided fairness in rankings via Lorenz dominance

Revisiting Popularity and Demographic Biases in Recommender Evaluation and Effectiveness

Reinforcement Routing on Proximity Graph for Efficient Recommendation

Optimizing generalized Gini indices for fairness in rankings

Personalizing Similar Product Recommendations in Fashion E-commerce

A hybrid approach to music playlist continuation based on playlist-song membership

Fast online ranking with fairness of exposure


Technical Analysis Library using Pandas and Numpy

A Hybrid Framework Using PCA, EMD and LSTM Methods for Stock Market Price Prediction with Sentiment Analysis

Improving Portfolio Performance Using a Novel Method for Predicting Financial Regimes


KErnel OPerationS, on CPUs and GPUs, with autodiff and without memory overflows

Deep Graph Matching Consensus

Sliced Gromov-Wasserstein

Kernel methods through the roof: handling billions of points efficiently

Scalable Constrained Bayesian Optimization

A contribution to Optimal Transport on incomparable spaces


Translate darknet to tensorflow. Load trained weights, retrain/fine-tune using tensorflow, export constant graph def to mobile devices

You Only Look Once: Unified, Real-Time Object Detection

YOLO9000: Better, Faster, Stronger

NO Need to Worry about Adversarial Examples in Object Detection in Autonomous Vehicles

Tracking individual honeybees among wildflower clusters with computer vision-facilitated pollinator monitoring

The art and practice of data science pipelines

R-TOD: Real-Time Object Detector with Minimized End-to-End Delay for Autonomous Driving

A Framework of Transfer Learning in Object Detection for Embedded Systems

Detection of Waste Containers Using Computer Vision

Research on Vehicle Trajectory Prediction and Warning Based on Mixed Neural Networks

Super-Resolved Recognition of License Plate Characters


This repository is for developing study packages for OHDSI studies. Once completed, they can be moved to the StudyProtocols repository.

Feasibility and Evaluation of a Large-Scale External Validation Approach for Patient-Level Prediction in an International Data Network: Validation of models predicting stroke in female patients newly diagnosed with atrial fibrillation.

Identifying the DEAD: Development and Validation of a Patient-Level Model to Predict Death Status in Population-Level Claims Data

Inferring disease severity in rheumatoid arthritis using predictive modeling in administrative claims databases

Supplementing claims data analysis using self-reported data to develop a probabilistic phenotype model for current smoking status

Ontologizing Health Systems Data at Scale: Making Translational Discovery a Reality


A data augmentations library for audio, image, text, and video.

AugLy: Data Augmentations for Robustness

Analysing the Robustness of Dual Encoders for Dense Retrieval Against Misspellings

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

Contrastive Learning with Large Memory Bank and Negative Embedding
  Subtraction for Accurate Copy Detection

Robust Deepfake On Unrestricted Media: Generation And Detection

The Augmented Image Prior: Distilling 1000 Classes by Extrapolating from
  a Single Image

3rd Place: A Global and Local Dual Retrieval Solution to Facebook AI
  Image Similarity Challenge

3rd Place Solution to Meta AI Video Similarity Challenge

FROB: Few-shot ROBust Model for Classification and Out-of-Distribution Detection

Increasing Data Diversity with Iterative Sampling to Improve Performance


Quantum Technology Toolbox https://qtt.readthedocs.io/

Computing with spin qubits at the surface code error threshold

Qubits made by advanced semiconductor manufacturing

Nagaoka ferromagnetism observed in a quantum dot plaquette

Loading a quantum-dot based “Qubyte” register

Electron cascade for distant spin readout


60 Implementations/tutorials of deep learning papers with side-by-side notes ; including transformers (original, xl, switch, feedback, vit, ...), optimizers (adam, adabelief, sophia, ...), gans(cyclegan, stylegan2, ...),  reinforcement learning (ppo, dqn), capsnet, distillation, ...

Deep Residual Learning for Image Recognition

Adam: A Method for Stochastic Optimization

Attention Is All You Need

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

U-Net: Convolutional Networks for Biomedical Image Segmentation

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

Generative Adversarial Networks

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

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

Distilling the Knowledge in a Neural Network


Operator Discretization Library  https://odlgroup.github.io/odl/

Learned Primal-Dual Reconstruction

Solving ill-posed inverse problems using iterative deep neural networks

Stochastic Primal-Dual Hybrid Gradient Algorithm with Arbitrary Sampling and Imaging Applications

Deep Bayesian Inversion

Deep Sinogram Completion With Image Prior for Metal Artifact Reduction in CT Images

Spatio-Temporal Deep Learning-Based Undersampling Artefact Reduction for 2D Radial Cine MRI With Limited Training Data

Learned convex regularizers for inverse problems

Generalized Sinkhorn Iterations for Regularizing Inverse Problems Using Optimal Mass Transport

Learning to solve inverse problems using Wasserstein loss

End-to-end reconstruction meets data-driven regularization for inverse problems


Unleash public transport data in your Java project.


This program converts MATLAB®/Octave figures to TikZ/pgfplots figures for smooth integration into LaTeX.

Photon Counting Histogram Expectation Maximization Algorithm for Characterization of Deep Sub-Electron Read Noise Sensors

On the optimal measurement of conversion gain in the presence of dark noise

Journal of the Optical Society of America. A, Optics, image science, and vision./Journal of the Optical Society of America. A, Online

Experimental Verification of PCH-EM Algorithm for Characterizing DSERN Image Sensors


LIBLINEAR -- A Library for Large Linear Classification

CoType: Joint Extraction of Typed Entities and Relations with Knowledge Bases

The Blessing of Dimensionality: Separation Theorems in the Thermodynamic Limit

Implicit Kernel Learning

Indirect Supervision for Relation Extraction using Question-Answer Pairs


PicoRV32 - A Size-Optimized RISC-V CPU

ISA Extensions for Finite Field Arithmetic

IACR transactions on cryptographic hardware and embedded systems

Exploring eFPGA-based Redaction for IP Protection

MIRACLE: MIcRo-ArChitectural Leakage Evaluation.

BRISC-V: An Open-Source Architecture Design Space Exploration Toolbox

Symposium on Field Programmable Gate Arrays

JuxtaPiton: Enabling Heterogeneous-ISA Research with RISC-V and SPARC FPGA Soft-cores

IOb-Cache: A High-Performance Configurable Open-Source Cache

IBTIDA: Fully open-source ASIC implementation of Chisel-generated System on a Chip

A Lightweight System-On-Chip Based Cryptographic Core for Low-Cost Devices

Design of an Integrated Cryptographic SoC Architecture for Resource-Constrained Devices

International journal of electrical and electronics research

MasterRTL: A Pre-Synthesis PPA Estimation Framework for Any RTL Design


Feature flippers.

Software development with feature toggles: practices used by practitioners

Feature Toggle Driven Development: Practices usedby Practitioners.


THIS REPOSITORY HAS MOVED TO github.com/nvidia/cub, WHICH IS AUTOMATICALLY MIRRORED HERE.

TurboTransformers: An Efficient GPU Serving System For Transformer Models

A Memory Bandwidth-Efficient Hybrid Radix Sort on GPUs

SIGMOD'17: PROCEEDINGS OF THE 2017 ACM INTERNATIONAL CONFERENCE ON MANAGEMENT OF DATA

Snap ML: A Hierarchical Framework for Machine Learning

Specifying and Testing GPU Workgroup Progress Models

Proceedings of the ACM on programming languages

MPU: Towards Bandwidth-abundant SIMT Processor via Near-bank Computing


Website for the MIMIC Critical Care Database (currently version MIMIC-III)

MIMIC-III, a freely accessible critical care database

The Neutrophil Percentage-to-Albumin Ratio as a New Predictor of All-Cause Mortality in Patients with Cardiogenic Shock

Admission oxygen saturation and all-cause in-hospital mortality in acute myocardial infarction patients: data from the MIMIC-III database

Admission Serum Ionized and Total Calcium as New Predictors of Mortality in Patients with Cardiogenic Shock

Association Between Obesity and Short-And Long-Term Mortality in Patients With Acute Respiratory Distress Syndrome Based on the Berlin Definition

Performance of Sequential Organ Failure Assessment and Simplified Acute Physiology Score II for Post-Cardiac Surgery Patients in Intensive Care Unit

The Prognostic Value of Calcium in Post-Cardiovascular Surgery Patients in the Intensive Care Unit


OpenML AutoML Benchmarking Framework

An Open Source AutoML Benchmark

OpenML Benchmarking Suites

TabPFN: A Transformer That Solves Small Tabular Classification Problems
  in a Second

AMLB: an AutoML Benchmark

LightAutoML: AutoML Solution for a Large Financial Services Ecosystem

Mining Robust Default Configurations for Resource-constrained AutoML


Java grammar for tree-sitter

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

Repository-Level Prompt Generation for Large Language Models of Code

Evaluating the Impact of Source Code Parsers on ML4SE Models

Coarse-Tuning Models of Code with Reinforcement Learning Feedback


A generalizable application framework for segmentation, regression, and classification using PyTorch

Federated Learning Enables Big Data for Rare Cancer Boundary Detection

GaNDLF: A Generally Nuanced Deep Learning Framework for Scalable End-to-End Clinical Workflows in Medical Imaging

The Brain Tumor Segmentation (BraTS) Challenge 2023: Focus on Pediatrics (CBTN-CONNECT-DIPGR-ASNR-MICCAI BraTS-PEDs).

Classification of Infection and Ischemia in Diabetic Foot Ulcers Using VGG Architectures

An Overview of Open Source Deep Learning-Based Libraries for Neuroscience


ColBERT: state-of-the-art neural search (SIGIR'20, TACL'21, NeurIPS'21, NAACL'22, CIKM'22, ACL'23, EMNLP'23)

ColBERT: Efficient and Effective Passage Search via Contextualized Late Interaction over BERT

ColBERTv2: Effective and Efficient Retrieval via Lightweight Late Interaction

Learning Passage Impacts for Inverted Indexes

Relevance-guided Supervision for OpenQA with ColBERT

Baleen: Robust Multi-Hop Reasoning at Scale via Condensed Retrieval

Making a MIRACL: Multilingual Information Retrieval Across a Continuum
  of Languages

Transfer Learning Approaches for Building Cross-Language Dense Retrieval Models

Are Neural Ranking Models Robust?

Query Embedding Pruning for Dense Retrieval

PROCEEDINGS OF THE 30TH ACM INTERNATIONAL CONFERENCE ON INFORMATION & KNOWLEDGE MANAGEMENT, CIKM 2021

Beyond Factuality: A Comprehensive Evaluation of Large Language Models as Knowledge Generators


:pencil2: Web-based image segmentation tool for object detection, localization, and keypoints

Global Wheat Head Detection (GWHD) Dataset: A Large and Diverse Dataset of High-Resolution RGB-Labelled Images to Develop and Benchmark Wheat Head Detection Methods

Real-Time Detection for Wheat Head Applying Deep Neural Network

OOD-CV: A Benchmark for Robustness to Out-of-Distribution Shifts of Individual Nuisances in Natural Images

Panoptic Segmentation on Panoramic Radiographs: Deep Learning-Based Segmentation of Various Structures Including Maxillary Sinus and Mandibular Canal

A Multimodal Imaging–Based Deep Learning Model for Detecting Treatment-Requiring Retinal Vascular Diseases: Model Development and Validation Study

Schistoscope: An Automated Microscope with Artificial Intelligence for Detection of Schistosoma haematobium Eggs in Resource-Limited Settings

Tree Detection and Diameter Estimation Based on Deep Learning

Forestry: An International Journal of Forest Research

Implementation of artificial intelligence algorithms for melanoma screening in a primary care setting

Weakly supervised one-stage vision and language disease detection using large scale pneumonia and pneumothorax studies

Semantics through Time: Semi-supervised Segmentation of Aerial Videos with Iterative Label Propagation


An implementation of Scalable service-Oriented MiddlewarE over IP

A Service-Oriented Real-Time Communication Scheme for AUTOSAR Adaptive Using OPC UA and Time-Sensitive Networking

An Authentication and Secure Communication Scheme for In-Vehicle Networks Based on SOME/IP

Design of a CANFD to SOME/IP Gateway Considering Security for In-Vehicle Networks

Protecting SOME/IP Communication via Authentication Ticket

Authenticated and Secure Automotive Service Discovery with DNSSEC and DANE


A high performance and generic framework for distributed DNN training

A Quantitative Survey of Communication Optimizations in Distributed Deep Learning

DAPPLE: A Pipelined Data Parallel Approach for Training Large Models

Optimizing Network Performance for Distributed DNN Training on GPU Clusters: ImageNet/AlexNet Training in 1.5 Minutes

Egeria: Efficient DNN Training with Knowledge-Guided Layer Freezing

NetReduce: RDMA-Compatible In-Network Reduction for Distributed DNN
  Training Acceleration

dPRO: A Generic Profiling and Optimization System for Expediting
  Distributed DNN Training

Caramel: Accelerating Decentralized Distributed Deep Learning with Computation Scheduling

DeAR: Accelerating Distributed Deep Learning with Fine-Grained All-Reduce Pipelining


A 3D computer vision development toolkit based on PaddlePaddle. It supports point-cloud object detection, segmentation, and monocular 3D object detection models.

nuScenes: A multimodal dataset for autonomous driving

PointPillars: Fast Encoders for Object Detection from Point Clouds

SemanticKITTI: A Dataset for Semantic Scene Understanding of LiDAR Sequences

Center-based 3D Object Detection and Tracking

Categorical Depth Distribution Network for Monocular 3D Object Detection

PAConv: Position Adaptive Convolution with Dynamic Kernel Assembling on Point Clouds

SqueezeSegV3: Spatially-Adaptive Convolution for Efficient Point-Cloud Segmentation

SMOKE: Single-Stage Monocular 3D Object Detection via Keypoint Estimation

CAPE: Camera View Position Embedding for Multi-View 3D Object Detection


COMPAS rapid binary population synthesis code

Cygnus X-1 contains a 21–solar mass black hole—Implications for massive star winds

Impact of massive binary star and cosmic evolution on gravitational wave observations I: black hole-neutron star mergers

Monthly notices of the Royal Astronomical Society

The role of mass transfer and common envelope evolution in the formation of merging binary black holes

The Redshift Evolution of the Binary Black Hole Merger Rate: A Weighty Matter

Simple recipes for compact remnant masses and natal kicks

Rapid Stellar and Binary Population Synthesis with COMPAS

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

Impact of massive binary star and cosmic evolution on gravitational wave observations – II. Double compact object rates and properties

Binary population synthesis with probabilistic remnant mass and kick prescriptions

Massive Stellar Triples Leading to Sequential Binary Black Hole Mergers in the Field

Be X-ray binaries in the SMC as indicators of mass-transfer efficiency

Monthly Notices of the Royal Astronomical Society


Next Generation Water Modeling Engine and Framework Prototype


System Evaluation of the Intel Optane Byte-addressable NVM

Proceedings of the International Symposium on Memory Systems

Persistent Memory I/O Primitives

Building blocks for persistent memory

Replicating Persistent Memory Key-Value Stores with Efficient RDMA
  Abstraction


⛔ DEPRECATED – See https://github.com/ageron/handson-ml3 instead.

Encoding High-Cardinality String Categorical Variables

IEEE transactions on knowledge and data engineering

Non-Euclidean Universal Approximation

Versatile Verification of Tree Ensembles

Learning Sub-Patterns in Piecewise Continuous Functions

Measuring the Algorithmic Convergence of Randomized Ensembles: The Regression Setting


A fast and sensitive gapped read aligner

Probiotics impact the antibiotic resistance gene reservoir along the human GI tract in a person-specific and antibiotic-dependent manner

A simple guide to de novo transcriptome assembly and annotation

In vivo engineered B cells secrete high titers of broadly neutralizing anti-HIV antibodies in mice

Multiple roles of H2A.Z in regulating promoter chromatin architecture in human cells

Comparison of De Novo Assembly Strategies for Bacterial Genomes

International journal of molecular sciences

Molecular parallelism in fast-twitch muscle proteins in echolocating mammals

A library of base editors for the precise ablation of all protein-coding genes in the mouse mitochondrial genome

Multi-omics Comparative Analysis of Streptomyces Mutants Obtained by Iterative Atmosphere and Room-Temperature Plasma Mutagenesis

Comparative Molecular Characterization of Novel and Known Piscine Toti-Like Viruses

Distinct mechanisms mediate X chromosome dosage compensation in Anopheles and Drosophila


A Julia/JuMP Package for Power Network Optimization

PowerModels.jl: An Open-Source Framework for Exploring Power Flow
  Formulations

Beyond Relaxation and Newton-Raphson: Solving AC OPF for Multi-phase
  Systems with Renewables

Statistical Learning For DC Optimal Power Flow

hynet: An Optimal Power Flow Framework for Hybrid AC/DC Power Systems

Fast and Robust Determination of Power System Emergency Control Actions

Methodology for Multi-stage, Operations- and Uncertainty-Aware Placement and Sizing of FACTS Devices in a Large Power Transmission System

Modeling and Rapid Prototyping of Integrated Transmission-Distribution OPF Formulations With PowerModelsITD.jl


Loss modelling framework.


Fast and efficient ed25519 signing and verification in Rust.

Narwhal and Tusk: A DAG-based Mempool and Efficient BFT Consensus

Bullshark: DAG BFT Protocols Made Practical

Jolteon and Ditto: Network-Adaptive Efficient Consensus with Asynchronous Fallback

FastPay: High-Performance Byzantine Fault Tolerant Settlement

uBFT: Microsecond-Scale BFT using Disaggregated Memory

Be Aware of Your Leaders

Zef: Low-latency, Scalable, Private Payments

Performance of EdDSA and BLS Signatures in Committee-Based Consensus

Robust, privacy-preserving, transparent, and auditable on-device
  blocklisting


Amplicon sequencing analysis workflow using DADA2 and QIIME2

DADA2: High-resolution sample inference from Illumina amplicon data

The nf-core framework for community-curated bioinformatics pipelines

Interpretations of Environmental Microbial Community Studies Are Biased by the Selected 16S rRNA (Gene) Amplicon Sequencing Pipeline

Arsenic mobilization by anaerobic iron-dependent methane oxidation

Identification of Bull Semen Microbiome by 16S Sequencing and Possible Relationships with Fertility

Prokaryotic and eukaryotic microbial diversity from three soda lakes in the East African Rift Valley determined by amplicon sequencing

Diversity Profiling of Seed Associated Endophytic Microbiome in Important Species of Caricaceae Family

In Vitro Incubations Do Not Reflect In Vivo Differences Based on Ranking of Low and High Methane Emitters in Dairy Cows

Animals : an open access journal from MDPI


ABC: System for Sequential Logic Synthesis and Formal Verification

Functional Analysis Attacks on Logic Locking

IEEE transactions on information forensics and security

The 5th Reactive Synthesis Competition (SYNTCOMP 2018): Benchmarks,
  Participants & Results

Solving SAT and MaxSAT with a Quantum Annealer: Foundations, Encodings, and Preliminary Results

Benchmarking at the Frontier of Hardware Security: Lessons from Logic Locking.

A Simulation-Guided Paradigm for Logic Synthesis and Verification

IEEE transactions on computer-aided design of integrated circuits and systems

Quantifiable Assurance: From IPs to Platforms

Late Breaking Results: Reinforcement Learning for Scalable Logic Optimization with Graph Neural Networks

SAT-based Circuit Local Improvement

An Automated Testing and Debugging Toolkit for Gate-Level Logic
  Synthesis Applications


A simple probabilistic programming language.

BatchEnsemble: An Alternative Approach to Efficient Ensemble and Lifelong Learning

Simple and Principled Uncertainty Estimation with Deterministic Deep Learning via Distance Awareness

How Good is the Bayes Posterior in Deep Neural Networks Really?

Argmax Flows and Multinomial Diffusion: Learning Categorical Distributions

Efficient and Scalable Bayesian Neural Nets with Rank-1 Factors

Hyperparameter Ensembles for Robustness and Uncertainty Quantification

Training independent subnetworks for robust prediction

Discrete Flows: Invertible Generative Models of Discrete Data

Bayesian Layers: A Module for Neural Network Uncertainty

MixMo: Mixing Multiple Inputs for Multiple Outputs via Deep Subnetworks


Powerful, automated analysis and design of quantum microwave chips & devices [Energy-Participation Ratio and more]

Energy-participation quantization of Josephson circuits

Catching and Reversing a Quantum Jump Mid-Flight

Quantum feedback for measurement and control

Entanglement assisted probe of the non-Markovian to Markovian transition
  in open quantum system dynamics


[NeurIPS'23 Oral] Visual Instruction Tuning (LLaVA) built towards GPT-4V level capabilities and beyond.

Visual Instruction Tuning

Improved Baselines with Visual Instruction Tuning

Instruction Tuning for Large Language Models: A Survey

LLaVAR: Enhanced Visual Instruction Tuning for Text-Rich Image
  Understanding

Cheap and Quick: Efficient Vision-Language Instruction Tuning for Large
  Language Models

HallE-Control: Controlling Object Hallucination in Large Multimodal Models

An Empirical Study of Scaling Instruct-Tuned Large Multimodal Models

FAITHSCORE: Evaluating Hallucinations in Large Vision-Language Models

Safety Fine-Tuning at (Almost) No Cost: A Baseline for Vision Large
  Language Models

GOAT-Bench: Safety Insights to Large Multimodal Models through
  Meme-Based Social Abuse


Ristretto: Caffe-based approximation of convolutional neural networks.

Hardware-oriented Approximation of Convolutional Neural Networks

Ristretto: A Framework for Empirical Study of Resource-Efficient Inference in Convolutional Neural Networks

IEEE transactions on neural networks and learning systems

Ristretto: Hardware-Oriented Approximation of Convolutional Neural Networks

Learning Sparse Low-Precision Neural Networks With Learnable Regularization

SqueezeJet: High-Level Synthesis Accelerator Design for Deep Convolutional Neural Networks


Haskell to JavaScript compiler, based on GHC

Lock-step simulation is child's play (experience report)

Holbert: Reading, Writing, Proving and Learning in the Browser


OpenMMLab Model Compression Toolbox and Benchmark.

DARTS: Differentiable Architecture Search

Single Path One-Shot Neural Architecture Search with Uniform Sampling

DetNAS: Backbone Search for Object Detection

AutoSlim: Towards One-Shot Architecture Search for Channel Numbers

Channel-wise Knowledge Distillation for Dense Prediction

Rethinking Soft Labels for Knowledge Distillation: A Bias-Variance Tradeoff Perspective

Masked Generative Distillation

PKD: General Distillation Framework for Object Detectors via Pearson
  Correlation Coefficient

Avatar Knowledge Distillation: Self-ensemble Teacher Paradigm with Uncertainty


AI拟声: 5秒内克隆您的声音并生成任意语音内容 Clone a voice in 5 seconds to generate arbitrary speech in real-time


cisst/SAW stack for the da Vinci Research Kit (dVRK)

Accelerating Surgical Robotics Research: A Review of 10 Years With the da Vinci Research Kit

A Robotic Recording and Playback Platform for Training Surgeons and Learning Autonomous Behaviors Using the da Vinci Surgical System

Unsupervised identification of surgical robotic actions from small non homogeneous datasets

Caveats on the first-generation da Vinci Research Kit: latent technical
  constraints and essential calibrations


Deep Reinforcement Learning for Keras.

Dopamine: A Research Framework for Deep Reinforcement Learning

Tianshou: a Highly Modularized Deep Reinforcement Learning Library

Reinforcement Learning with Perturbed Rewards

MushroomRL: Simplifying Reinforcement Learning Research

Ensemble-Based Deep Reinforcement Learning for Chatbots

AllenAct: A Framework for Embodied AI Research

Learning to Unknot

Air Learning: An AI Research Platform for Algorithm-Hardware Benchmarking of Autonomous Aerial Robots

Optimal Attacks on Reinforcement Learning Policies

DRLinFluids -- An open-source python platform of coupling Deep
  Reinforcement Learning and OpenFOAM


Link Discovery Framework for Metric Spaces.

LIMES: A Framework for Link Discovery on the Semantic Web

CovidPubGraph: A FAIR Knowledge Graph of COVID-19 Publications

On the Effect of Geometries Simplification on Geo-spatial Link Discovery

MaskLink: Efficient Link Discovery for Spatial Relations via Masking Areas.

A Comparative Evaluation of Geospatial Semantic Web Frameworks for Cultural Heritage

Three-dimensional Geospatial Interlinking with JedAI-spatial

Duplicate Detection as a Service

Application of Open-Source Software in Knowledge Graph Construction


OpenVINO Training Extensions Object Re-identification

Omni-Scale Feature Learning for Person Re-Identification

Learning Generalisable Omni-Scale Representations for Person Re-Identification

Torchreid: A Library for Deep Learning Person Re-Identification in Pytorch

Combining Metric Learning and Attention Heads For Accurate and Efficient
  Multilabel Image Classification


C++ library and cmdline tools for parsing and manipulating VCF files with python and zig bindings

A global reference for human genetic variation

Real-time, portable genome sequencing for Ebola surveillance

Integrating human sequence data sets provides a resource of benchmark SNP and indel genotype calls

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

Highly rearranged chromosomes reveal uncoupling between genome topology and gene expression

Genome sequences of two diploid wild relatives of cultivated sweetpotato reveal targets for genetic improvement

Best practices for evaluating single nucleotide variant calling methods for microbial genomics

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

Hybridization Capture Using RAD Probes (hyRAD), a New Tool for Performing Genomic Analyses on Collection Specimens

Global expansion of Mycobacterium tuberculosis lineage 4 shaped by colonial migration and local adaptation


A Python implementation of global optimization with gaussian processes.

A Tutorial on Bayesian Optimization of Expensive Cost Functions, with Application to Active User Modeling and Hierarchical Reinforcement Learning

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

PRADA: Protecting against DNN Model Stealing Attacks

Unsupervised Machine Learning on a Hybrid Quantum Computer

Federated Collaborative Filtering for Privacy-Preserving Personalized Recommendation System

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

Weighted Random Search for CNN Hyperparameter Optimization

International Journal of Computers, Communications & Control

All You Need is a Good Functional Prior for Bayesian Deep Learning

Real-Time Semantic Background Subtraction

Interventions, Where and How? Experimental Design for Causal Models at
  Scale


Ongoing analysis of COVID-19 using Galaxy, BioConda and public research infrastructures

Template switching and duplications in SARS-CoV-2 genomes give rise to insertion variants that merit monitoring

No more business as usual: Agile and effective responses to emerging pathogen threats require open data and open analytics

Freely accessible ready to use global infrastructure for SARS-CoV-2 monitoring

bioRxiv : the preprint server for biology

A SARS-CoV-2 sequence submission tool for the European Nucleotide Archive


UCSC Genome Browser source tree. Stable branch: "beta".

Progressive Cactus is a multiple-genome aligner for the thousand-genome era

Stability of SARS-CoV-2 phylogenies

Nuclear genetic control of mtDNA copy number and heteroplasmy in humans

medRxiv : the preprint server for health sciences

Identifying SARS-CoV-2 regional introductions and transmission clusters in real time

The Caenorhabditis elegans TDRD5/7-like protein, LOTR-1, interacts with the helicase ZNFX-1 to balance epigenetic signals in the germline

Novel insights into the role of long non-coding RNA in the human malaria parasite, Plasmodium falciparum

Androgen-Binding Protein (Abp) Evolutionary History: Has Positive Selection Caused Fixation of Different Paralogs in Different Taxa of the Genus Mus?

A global map of RNA binding protein occupancy guides functional dissection of post-transcriptional regulation of the T cell transcriptome

Targeting Oncogenic Wnt/β-Catenin Signaling in Adrenocortical Carcinoma Disrupts ECM Expression and Impairs Tumor Growth

Benchmarking of computational methods for m6A profiling with Nanopore direct RNA sequencing


A library for graph deep learning research

Explainability in Graph Neural Networks: A Taxonomic Survey

On Explainability of Graph Neural Networks via Subgraph Explorations

Self-Supervised Learning of Graph Neural Networks: A Unified Review

Spherical Message Passing for 3D Graph Networks

Explainable AI Methods - A Brief Overview

3D Infomax improves GNNs for Molecular Property Prediction

Trustworthy AI: A Computational Perspective

DIG: A Turnkey Library for Diving into Graph Deep Learning Research

Forces are not Enough: Benchmark and Critical Evaluation for Machine Learning Force Fields with Molecular Simulations

GraphEBM: Molecular Graph Generation with Energy-Based Models


An Open Source Machine Learning Framework for Everyone

TensorFlow: A system for large-scale machine learning

Highly accurate protein structure prediction with AlphaFold

MobileNets: Efficient Convolutional Neural Networks for Mobile Vision Applications

TensorFlow: Large-Scale Machine Learning on Heterogeneous Distributed Systems

Quantization and Training of Neural Networks for Efficient Integer-Arithmetic-Only Inference

Theano: A Python framework for fast computation of mathematical expressions

Speech Commands: A Dataset for Limited-Vocabulary Speech Recognition

Reconstructing cell cycle and disease progression using deep learning

To prune, or not to prune: exploring the efficacy of pruning for model compression

Emotional Chatting Machine: Emotional Conversation Generation with Internal and External Memory


Reference mapping for single-cell genomics

Mapping single-cell data to reference atlases by transfer learning

Efficient and precise single-cell reference atlas mapping with Symphony

Query to reference single-cell integration with transfer learning

Application of Deep Learning on Single-cell RNA Sequencing Data Analysis: A Review

基因组蛋白质组与生物信息学报


Modular Ocean Model

SPEAR: The Next Generation GFDL Modeling System for Seasonal to Multidecadal Prediction and Projection

Journal of advances in modeling earth systems

GFDL's SPEAR Seasonal Prediction System: Initialization and Ocean Tendency Adjustment (OTA) for Coupled Model Predictions

Substantial global influence of anthropogenic aerosols on tropical cyclones over the past 40 years

A weakened AMOC may prolong greenhouse gas–induced Mediterranean drying even with significant and rapid climate change mitigation

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

Parameterization of Submesoscale Symmetric Instability in Dense Flows Along Topography

On Energy Cascades in General Flows: A Lagrangian Application


CRPropa is a public astrophysical simulation framework for propagating extraterrestrial ultra-high energy particles.   https://crpropa.github.io/CRPropa3/

CRPropa 3-a public astrophysical simulation framework for propagating extraterrestrial ultra-high energy particles

Journal of Cosmology and Astroparticle Physics

Propagation of ultrahigh energy cosmic rays in extragalactic magnetic fields: a view from cosmological simulations

CRPropa 3.1—a low energy extension based on stochastic differential equations

Bayesian inference constraints on astrophysical production of ultra-high energy cosmic rays and cosmogenic neutrino flux predictions

Luminous and high-frequency peaked blazars: the origin of the gamma-ray emission from PKS 1424+240

On the relative importance of hadronic emission processes along the jet axis of active galactic nuclei

Simulating the Galactic multi-messenger emissions with HERMES

Constraints on the Intergalactic Magnetic Field Using Fermi-LAT and H.E.S.S. Blazar Observations

CRPropa 3.2: a public framework for high-energy astroparticle simulations

Proceedings of 38th International Cosmic Ray Conference — PoS(ICRC2023)


An Extensible Deep Learning Library

GSPMD: General and Scalable Parallelization for ML Computation Graphs

Less is More: Removing Text-regions Improves CLIP Training Efficiency
  and Robustness

VeCLIP: Improving CLIP Training via Visual-enriched Captions

MOFI: Learning Image Representations from Noisy Entity Annotated Images

MM1: Methods, Analysis & Insights from Multimodal LLM Pre-training


Materials science with Python at the atomic-scale

Correlations of non-affine displacements in metallic glasses through the yield transition

In operando active learning of interatomic interaction during large-scale simulations

Machine learning: science and technology

Hybrid quantum/classical study of hydrogen-decorated screw dislocations in tungsten: Ultrafast pipe diffusion, core reconstruction, and effects on glide mechanism

A Combined Experimental and Atomistic Investigation of PTFE Double Transfer Film Formation and Lubrication in Rolling Point Contacts

Exploring the configurational space of amorphous graphene with machine-learned atomic energies

Numerical-continuation-enhanced flexible boundary condition scheme applied to mode-I and mode-III fracture

LagrangeBench: A Lagrangian Fluid Mechanics Benchmarking Suite


RESTler is the first stateful REST API fuzzing tool for automatically testing cloud services through their REST APIs and finding security and reliability bugs in these services.

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

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

Empirical Comparison of Black-box Test Case Generation Tools for RESTful APIs

Open Problems in Fuzzing RESTful APIs: A Comparison of Tools

Testing RESTful APIs: A Survey

REST API Fuzzing by Coverage Level Guided Blackbox Testing

AUTOMATIC DETECTION OF ACCESS CONTROL VULNERABILITIES VIA API SPECIFICATION PROCESSING


Deep learning software to decode EEG, ECG or MEG signals

EEGNet: a compact convolutional neural network for EEG-based brain–computer interfaces

Deep learning with convolutional neural networks for EEG decoding and visualization

An extended clinical EEG dataset with 15,300 automatically labelled recordings for pathology decoding

Motor Imagery Decoding Using Ensemble Curriculum Learning and
  Collaborative Training

An Overview of Open Source Deep Learning-Based Libraries for Neuroscience

Amplifying Pathological Detection in EEG Signaling Pathways through
  Cross-Dataset Transfer Learning


Open Source Smart Meter with focus on privacy - you remain the master of your data.


RTAB-Map library and standalone application

RTAB‐Map as an open‐source lidar and visual simultaneous localization and mapping library for large‐scale and long‐term online operation

Multi-Session Visual SLAM for Illumination-Invariant Re-Localization in Indoor Environments

Map-merging Algorithms for Visual SLAM: Feasibility Study and Empirical Evaluation


A FPGA friendly 32 bit RISC-V CPU implementation

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

IACR transactions on cryptographic hardware and embedded systems

ISA Extensions for Finite Field Arithmetic

Parameterized Hardware Accelerators for Lattice-Based Cryptography and Their Application to the HW/SW Co-Design of qTESLA

RVCoreP : An optimized RISC-V soft processor of five-stage pipelining

IEICE transactions on information and systems

Low-power high-performance 32-bit RISC-V microcontroller on 65-nm silicon-on-thin-BOX (SOTB)

A trigonometric hardware acceleration in 32-bit RISC-V microcontroller with custom instruction

A portable and Linux capable RISC-V computer system in Verilog HDL

RVCoreP-32IM: An effective architecture to implement mul/div instructions for five stage RISC-V soft processors.

Rosebud: Making FPGA-Accelerated Middlebox Development More Pleasant

BasicBlocker: ISA Redesign to Make Spectre-Immune CPUs Faster


Hybrid Systems Optimization and Performance Platform.

Turbine scale and siting considerations in wind plant layout optimization and implications for capacity density


A collection of Java libraries for basic AI algorithms (JAICore) and automated software composition, in particular AutoML (softwareconfiguration)

ML-Plan: Automated machine learning via hierarchical planning

Automated Multi-Label Classification based on ML-Plan

Single and Parallel Machine Scheduling with Variable Release Dates


Apache Parquet

Pairtools: from sequencing data to chromosome contacts

The Case For Alternative Web Archival Formats To Expedite The Data-To-Insight Cycle

ACM/IEEE Joint Conference on Digital Libraries

Spatial Parquet: A Column File Format for Geospatial Data Lakes
  [Extended Version]

SARS-CoV2 billion-compound docking

Extensible Data Skipping

Columnar Formats for Schemaless LSM-based Document Stores

ROOT I/O compression improvements for HEP analysis

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


Massively Parallel Deep Reinforcement Learning.

FinRL-Meta: Market Environments and Benchmarks for Data-Driven Financial Reinforcement Learning

ElegantRL-Podracer: Scalable and Elastic Library for Cloud-Native Deep
  Reinforcement Learning

FinRL-Meta: A Universe of Near-Real Market Environments for Data-Driven
  Deep Reinforcement Learning in Quantitative Finance

Dynamic Datasets and Market Environments for Financial Reinforcement
  Learning


Espresso: A Fast End-to-End Neural Speech Recognition Toolkit

Espresso: A Fast End-to-end Neural Speech Recognition Toolkit

End-to-End Speech Recognition: A Survey

PyChain: A Fully Parallelized PyTorch Implementation of LF-MMI for End-to-End ASR

End-to-End Speech Recognition and Disfluency Removal

Relaxed Attention: A Simple Method to Boost Performance of End-to-End Automatic Speech Recognition

Relaxed Attention for Transformer Models

iRNN: Integer-only Recurrent Neural Network


An implementation of the Grammar of Graphics in R

Structure and evolutionary implications of the earliest (Sinemurian, Early Jurassic) dinosaur eggs and eggshells

Back from the dead; the curious tale of the predatory cyanobacterium Vampirovibrio chlorellavorus

The U2AF1S34F mutation induces lineage-specific splicing alterations in myelodysplastic syndromes

The Journal of clinical investigation/The journal of clinical investigation

Endogenous retroviruses drive species-specific germline transcriptomes in mammals

CancerSCEM: a database of single-cell expression map across various human cancers

Proficiency Testing of Standardized Samples Shows Very High Interlaboratory Agreement for Clinical Next-Generation Sequencing-Based Oncology Assays.

Archives of pathology & laboratory medicine

Implications of Climate Change: How Does Increased Water Temperature Influence Biofilm and Water Quality of Chlorinated Drinking Water Distribution Systems?

Genomic Epidemiology and Characterization of Methicillin-Resistant Staphylococcus aureus from Bloodstream Infections in China

Deciphering Genetics Underlying Stable Anaerobic Germination in Rice: Phenotyping, QTL Identification, and Interaction Analysis

Long-chain noncoding ribonucleic acids affect the survival and prognosis of patients with esophageal adenocarcinoma through the autophagy pathway: construction of a prognostic model


a modeling environment tailored to parameter estimation in dynamical systems

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

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

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

A New Approximation Approach for Transient Differential Equation Models

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

Optimal Experimental Design Based on Two-Dimensional Likelihood Profiles

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


Measure and Optimize Web Performance

EYEORG: A Platform For Crowdsourcing Web Quality Of Experience Measurements

PROCEEDINGS OF THE 12TH INTERNATIONAL CONFERENCE ON EMERGING NETWORKING EXPERIMENTS AND TECHNOLOGIES (CONEXT'16)

A performance perspective on web optimized protocol stacks

Proceedings of the Applied Networking Research Workshop

Is the Web ready for HTTP/2 Server Push?

Conference on Emerging Network Experiment and Technology

Perceiving QUIC: Do Users Notice or Even Care?

ERRANT: Realistic emulation of radio access networks

Sharding and HTTP/2 connection reuse revisited

PTPerf: On the Performance Evaluation of Tor Pluggable Transports

Tweaking Metasploit to Evade Encrypted C2 Traffic Detection


High-quality single file implementation of Deep Reinforcement Learning algorithms with research-friendly features (PPO, DQN, C51, DDPG, TD3, SAC, PPG)

Distributed Prioritized Experience Replay

PettingZoo: Gym for Multi-Agent Reinforcement Learning

CleanRL: High-quality Single-file Implementations of Deep Reinforcement Learning Algorithms

Approximately Solving Mean Field Games via Entropy-Regularized Deep Reinforcement Learning

EnvPool: A Highly Parallel Reinforcement Learning Environment Execution
  Engine

Tonic: A Deep Reinforcement Learning Library for Fast Prototyping and
  Benchmarking

OmniSafe: An Infrastructure for Accelerating Safe Reinforcement Learning
  Research

Robust Policy Optimization in Deep Reinforcement Learning

Efficient Offline Policy Optimization with a Learned Model


pygame (the library) is a Free and Open Source python programming language library for making multimedia applications like games built on top of the excellent SDL library. C, Python, Native, OpenGL.

Revisiting Energy Based Models as Policies: Ranking Noise Contrastive
  Estimation and Interpolating Energy Models

DRAST - A Deep Learning and AST Based Approach for Bug Localization.

SMAClite: A Lightweight Environment for Multi-Agent Reinforcement
  Learning


BoSSS is a flexible framework for the development, evaluation & application of numerical discretization schemes based on the Discontinuous Galerkin method

BoSSS: a package for multigrid extended discontinuous Galerkin methods

On a marching level-set method for extended discontinuous Galerkin methods for incompressible two-phase flows: Application to two-dimensional settings

A fully coupled high‐order discontinuous Galerkin solver for viscoelastic fluid flow

International journal for numerical methods in fluids

An Extended Discontinuous Galerkin Method for High-Order Shock-Fitting

The extended discontinuous Galerkin method adapted for moving contact line problems via the generalized Navier boundary condition


Mask R-CNN for object detection and instance segmentation on Keras and TensorFlow

Cell Detection with Star-convex Polygons

Medical Image Computing and Computer-Assisted Intervention

DynaSLAM: Tracking, Mapping and Inpainting in Dynamic Scenes

International Conference on Robotics and Automation

Normalized Object Coordinate Space for Category-Level 6D Object Pose and Size Estimation

Deep Semantic Segmentation of Natural and Medical Images: A Review

Nucleus segmentation across imaging experiments: the 2018 Data Science Bowl

Extracting Triangular 3D Models, Materials, and Lighting From Images

Grape detection, segmentation, and tracking using deep neural networks and three-dimensional association

Computers and electronics in agriculture

Attention Guided Low-Light Image Enhancement with a Large Scale Low-Light Simulation Dataset

nucleAIzer: A Parameter-free Deep Learning Framework for Nucleus Segmentation Using Image Style Transfer

Test-time augmentation for deep learning-based cell segmentation on microscopy images


EasyNLP: A Comprehensive and Easy-to-use NLP Toolkit

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

Distilling the Knowledge in a Neural Network

Learning Transferable Visual Models From Natural Language Supervision

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

BLIP: Bootstrapping Language-Image Pre-training for Unified Vision-Language Understanding and Generation

Taming Transformers for High-Resolution Image Synthesis

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

GPT Understands, Too

K-BERT: Enabling Language Representation with Knowledge Graph

CLUE: A Chinese Language Understanding Evaluation Benchmark


Metasploitable3 is a VM that is built from the ground up with a large amount of security vulnerabilities.

TON_IoT Telemetry Dataset: A New Generation Dataset of IoT and IIoT for Data-Driven Intrusion Detection Systems

Federated TON_IoT Windows Datasets for Evaluating AI-based Security Applications

Data Analytics-enabled Intrusion Detection: Evaluations of ToN_IoT Linux Datasets

Densely Connected Residual Network for Attack Recognition


Code

SBFT: a Scalable and Decentralized Trust Infrastructure

DECO: Liberating Web Data Using Decentralized Oracles for TLS

Conference on Computer and Communications Security

A Guideline on Pseudorandom Number Generation (PRNG) in the IoT

Private Processing of Outsourced Network Functions: Feasibility and Constructions

Integrating Edge Intelligence and Blockchain: What, Why, and How

IEEE Communications surveys and tutorials/IEEE communications surveys and tutorials

Systematizing core properties of pairing-based attribute-based encryption to uncover remaining challenges in enforcing access control in practice

A Model to Evaluate Reliability of Authentication Protocols in C-ITS Safety-Critical Applications

IEEE transactions on vehicular technology

Memory Efficient Implementation of Modular Multiplication for 32-bit ARM Cortex-M4

On the Efficiency of Pairing-Based Authentication for Connected Vehicles: Time is Not on Our Side!

IEEE transactions on information forensics and security

CoqQFBV: A Scalable Certified SMT Quantifier-Free Bit-Vector Solver


FFLAS-FFPACK - Finite Field Linear Algebra Subroutines / Package

Deterministic computation of the characteristic polynomial in the time of matrix multiplication

Fast Matrix Multiplication and Symbolic Computation

Implementations of Efficient Univariate Polynomial Matrix Algorithms and Application to Bivariate Resultants

Block-Krylov techniques in the context of sparse-FGLM algorithms

On fast multiplication of a matrix by its transpose

International Symposium on Symbolic and Algebraic Computation


Source code for the TKET quantum compiler, Python bindings and utilities

Bugs in Quantum Computing Platforms: An Empirical Study

ISAAQ: Ising Machine Assisted Quantum Compiler


Google Brain AutoML

EfficientDet: Scalable and Efficient Object Detection

EfficientNetV2: Smaller Models and Faster Training

Weighted boxes fusion: Ensembling boxes from different object detection models

Symbolic Discovery of Optimization Algorithms

Robust and Accurate Object Detection via Adversarial Learning

Litter Detection with Deep Learning: A Comparative Study

Neural Architecture Search Survey: A Computer Vision Perspective

Towards More Efficient EfficientDets and Real-Time Marine Debris Detection

Convergence Guarantees for Stochastic Subgradient Methods in Nonsmooth
  Nonconvex Optimization

Model Composition: Can Multiple Neural Networks Be Combined into a Single Network Using Only Unlabeled Data?


An advanced SAT solver

cvc5: A Versatile and Industrial-Strength SMT Solver

Tools and Algorithms for the Construction and Analysis of Systems

Guiding High-Performance SAT Solvers with Unsat-Core Predictions

Design and Results of the Second International Competition on Computational Models of Argumentation

Manthan: A Data Driven Approach for Boolean Function Synthesis

Belief Propagation Neural Networks

Certifying Parity Reasoning Efficiently Using Pseudo-Boolean Proofs

Factoring semi-primes with (quantum) SAT-solvers

CVC4 at the SMT Competition 2018

Hidden in snow, revealed in thaw: Cold boot attacks revisited.

The pigenhole principle and multicolor Ramsey numbers


OP2: open-source framework for the execution of unstructured grid applications on clusters of GPUs or multi-core CPUs

Acceleration of a Full-Scale Industrial CFD Application with OP2

IEEE transactions on parallel and distributed systems

The VOLNA-OP2 tsunami code (version 1.5)

Locality Optimized Unstructured Mesh Algorithms on GPUs

Comparison of Parallelisation Approaches, Languages, and Compilers for Unstructured Mesh Algorithms on GPUs


[EMNLP 2022] An Open Toolkit for Knowledge Graph Extraction and Construction

Reasoning with Language Model Prompting: A Survey

Attention-Based Capsule Networks with Dynamic Routing for Relation Extraction

LightNER: A Lightweight Tuning Paradigm for Low-resource NER via
  Pluggable Prompting

DeepKE: A Deep Learning Based Knowledge Extraction Toolkit for Knowledge Base Population

The Devil is the Classifier: Investigating Long Tail Relation Classification with Decoupling Analysis

How to Unleash the Power of Large Language Models for Few-shot Relation Extraction?

CodeKGC: Code Language Model for Generative Knowledge Graph Construction

InstructIE: A Chinese Instruction-based Information Extraction Dataset

One Model for All Domains: Collaborative Domain-Prefix Tuning for Cross-Domain NER

On Analyzing the Role of Image for Visual-enhanced Relation Extraction


Various algorithms for analysing genomics data

Pan-cancer whole-genome comparison of primary and metastatic solid tumours

Unscrambling cancer genomes via integrated analysis of structural variation and copy number

Genetic immune escape landscape in primary and metastatic cancer

Genetic Subgroups Inform on Pathobiology in Adult and Pediatric Burkitt Lymphoma

Enhancing sensitivity and controlling false discovery rate in somatic indel discovery

Distinct Genomic Profiles Are Associated with Treatment Response and Survival in Ovarian Cancer

Lost by Transcription: Fork Failures, Elevated Expression, and Clinical Consequences Related to Deletions in Metastatic Colorectal Cancer

International journal of molecular sciences

Familial Occurrence of Adult Granulosa Cell Tumors: Analysis of Whole-Genome Germline Variants

Non-homologous end joining shapes the genomic rearrangement landscape of chromothripsis from mitotic errors

bioRxiv : the preprint server for biology

Comparative analyses define differences between BHD-associated renal tumour and sporadic chromophobe renal cell carcinoma


Facilitating the design, comparison and sharing of deep text matching models.

Text Matching as Image Recognition

Response Ranking with Deep Matching Networks and External Knowledge in Information-seeking Conversation Systems

International ACM SIGIR Conference on Research and Development in Information Retrieval

A Hybrid Retrieval-Generation Neural Conversation Model

A study on the Interpretability of Neural Retrieval Models using DeepSHAP

PROCEEDINGS OF THE 42ND INTERNATIONAL ACM SIGIR CONFERENCE ON RESEARCH AND DEVELOPMENT IN INFORMATION RETRIEVAL (SIGIR '19)

MatchZoo: A Toolkit for Deep Text Matching

Neural IR Meets Graph Embedding: A Ranking Model for Product Search

IART: Intent-aware Response Ranking with Transformers in Information-seeking Conversation Systems

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

Impact of Training Dataset Size on Neural Answer Selection Models

Learning to Create Better Ads: Generation and Ranking Approaches for Ad Creative Refinement


SonicBOOM: The Berkeley Out-of-Order Machine


Enarx: Confidential Computing with WebAssembly

Swivel: Hardening WebAssembly against Spectre

Twine: An Embedded Trusted Runtime for WebAssembly

International Conference on Data Engineering

SmashEx: Smashing SGX Enclaves Using Exceptions

undeSErVed trust: Exploiting Permutation-Agnostic Remote Attestation

Understanding TEE Containers, Easy to Use? Hard to Trust

End-to-End Security for Distributed Event-driven Enclave Applications on Heterogeneous TEEs

Private delegated computations using strong isolation


The Z3 Theorem Prover

Nopol: Automatic Repair of Conditional Statement Bugs in Java Programs

IEEE transactions on software engineering

Smart Contract Security: A Software Lifecycle Perspective

Realtime Robust Malicious Traffic Detection via Frequency Domain Analysis

PhISCS - A Combinatorial Approach for Sub-perfect Tumor Phylogeny Reconstruction via Integrative use of Single Cell and Bulk Sequencing Data

SCNS: a graphical tool for reconstructing executable regulatory networks from single-cell genomic data

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

RustHorn: CHC-based Verification for Rust Programs

PROGRAMMING LANGUAGES AND SYSTEMS ( ESOP 2020)

ICE-Based Refinement Type Discovery for Higher-Order Functional Programs

Tools and Algorithms for Construction and Analysis of Systems

StringFuzz: A Fuzzer for String Solvers

PRISM-games 3.0: Stochastic Game Verification with Concurrency, Equilibria and Time


The Unofficial TikTok API Wrapper In Python

#TulsaFlop: A Case Study of Algorithmically-Influenced Collective Action on TikTok.

Investigating COVID-19 Vaccine Communication and Misinformation on TikTok: Cross-sectional Study

Will you dance to the challenge?

Proceedings of the 2021 IEEE/ACM International Conference on Advances in Social Networks Analysis and Mining

Abortion Misinformation on TikTok: Rampant Content, Lax Moderation, and
  Vivid User Experiences

The Invasion of Ukraine Viewed through TikTok: A Dataset


Library of derived climate variables, ie climate indicators, based on xarray.


This is the official development repository for BCFtools. See installation instructions and other documentation here http://samtools.github.io/bcftools/howtos/install.html

A global reference for human genetic variation

Twelve years of SAMtools and BCFtools

BCFtools/RoH: a hidden Markov model approach for detecting autozygosity from next-generation sequencing data

The first insight into the genetic structure of the population of modern Serbia

Korean Variant Archive (KOVA): a reference database of genetic variations in the Korean population

Sarek: A portable workflow for whole-genome sequencing analysis of germline and somatic variants

Assessment of Genetic Diversity and Population Structure in Iranian Cannabis Germplasm

Sister-chromatid-sensitive Hi-C reveals the conformation of replicated human chromosomes

The Welwitschia genome reveals a unique biology underpinning extreme longevity in deserts

The evolution of a counter-defense mechanism in a virus constrains its host range


A deep learning library for video understanding research.

SlowFast Networks for Video Recognition

Multiscale Vision Transformers

X3D: Expanding Architectures for Efficient Video Recognition

Masked Feature Prediction for Self-Supervised Visual Pre-Training

MViTv2: Improved Multiscale Vision Transformers for Classification and Detection

PyTorchVideo: A Deep Learning Library for Video Understanding

AutoVideo: An Automated Video Action Recognition System

TimeBalance: Temporally-Invariant and Temporally-Distinctive Video Representations for Semi-Supervised Action Recognition

Deep Learning-Based Human Action Recognition with Key-Frames Sampling Using Ranking Methods

Soft-Landing Strategy for Alleviating the Task Discrepancy Problem in Temporal Action Localization Tasks


PaLM 2 Technical Report

Efficient Large Language Models: A Survey

Model Compression and Efficient Inference for Large Language Models: A Survey


Spatio Temporal Affinity Fields (CVPR 2019)

OpenPose: Realtime Multi-Person 2D Pose Estimation Using Part Affinity Fields

Realtime Multi-Person 2D Pose Estimation using Part Affinity Fields

Convolutional Pose Machines

Hand Keypoint Detection in Single Images using Multiview Bootstrapping

A Review on Human Pose Estimation


An enterprise-grade Java-based, Apache 2.0 licensed Ethereum client

Atomic Crosschain Transactions for Ethereum Private Sidechains

IBFT 2.0: A Safe and Live Variation of the IBFT Blockchain Consensus Protocol for Eventually Synchronous Networks.

The merits of using Ethereum MainNet as a Coordination Blockchain for Ethereum Private Sidechains

Anonymous State Pinning for Private Blockchains


A Julia library for efficient tensor computations and tensor network calculations

The ITensor Software Library for Tensor Network Calculations

DMRG Approach to Optimizing Two-Dimensional Tensor Networks

Disentangling Interacting Systems with Fermionic Gaussian Circuits:
  Application to the Single Impurity Anderson Model


Transportation Fuels Reporting System


Lime: Explaining the predictions of any machine learning classifier

"Why Should I Trust You?": Explaining the Predictions of Any Classifier

Right for the Right Reasons: Training Differentiable Models by Constraining their Explanations

Local Rule-Based Explanations of Black Box Decision Systems

CXPlain: Causal Explanations for Model Interpretation under Uncertainty

Explaining by Removing: A Unified Framework for Model Explanation

Comparing Automatic and Human Evaluation of Local Explanations for Text Classification

North American Chapter of the Association for Computational Linguistics

Explanations of model predictions with live and breakDown packages

Survey of Explainable AI Techniques in Healthcare

Exact and Consistent Interpretation for Piecewise Linear Neural Networks: A Closed Form Solution

Measurable Counterfactual Local Explanations for Any Classifier


Example applications using the wolfSSL lightweight SSL/TLS library

Guardian: Symbolic Validation of Orderliness in SGX Enclaves

EBF: A Hybrid Verification Tool for Finding Software Vulnerabilities in IoT Cryptographic Protocols.


A machine learning software for extracting information from scholarly documents

CORD-19: The COVID-19 Open Research Dataset

S2ORC: The Semantic Scholar Open Research Corpus

Galactica: A Large Language Model for Science

CERMINE: automatic extraction of structured metadata from scientific literature

International journal on document analysis and recognition

Mitigating dataset harms requires stewardship: Lessons from 1000 papers

scite: a smart citation index that displays the context of citations and classifies their intent using deep learning

Comparing Published Scientific Journal Articles to Their Pre-print Versions

Machine Learning vs. Rules and Out-of-the-Box vs. Retrained: An Evaluation of Open-Source Bibliographic Reference and Citation Parsers

Progress in climate change adaptation research

The Semantic Scholar Open Data Platform


A web privacy measurement framework

Browser Fingerprinting: A survey

Measuring third party tracker power across web and mobile

Variations in Tracking in Relation to Geographic Location.

Stop tracking me Bro! Differential Tracking of User Demographics on Hyper-Partisan Websites

Exploiting Input Sanitization for Regex Denial of Service

Actions speak louder than words: Semi-supervised learning for browser
  fingerprinting detection

Mutual Hyperlinking Among Misinformation Peddlers

Privacy-preserving targeted mobile advertising: A Blockchain-based framework for mobile ads

Under the Spotlight: Web Tracking in Indian Partisan News Websites

You get PADDING, everybody gets PADDING! You get privacy? Evaluating
  practical QUIC website fingerprinting protections for the masses


RandomX, KawPow, CryptoNight and GhostRider unified CPU/GPU miner and RandomX benchmark

A First Look at the Crypto-Mining Malware Ecosystem: A Decade of Unrestricted Wealth

SoK: Cryptojacking Malware

Detection of Encrypted Cryptomining Malware Connections With Machine and Deep Learning

Dissecting Android Cryptocurrency Miners

Conference on Data and Application Security and Privacy

WebAssembly Diversification for Malware Evasion

Mining CryptoNight-Haven on the Varium C1100 Blockchain Accelerator Card


TensorFlow Graphics: Differentiable Graphics Layers for TensorFlow

Local Implicit Grid Representations for 3D Scenes

DeepPoseKit, a software toolkit for fast and robust animal pose estimation using deep learning

Solving inverse-PDE problems with physics-aware neural networks

Continual Neural Mapping: Learning An Implicit Scene Representation from Sequential Observations

Self-supervised learning with physics-aware neural networks - I. Galaxy model fitting

Monthly notices of the Royal Astronomical Society


Marker Clustering plugin for Leaflet

A social media analytics platform visualising the spread of COVID-19 in Italy via exploitation of automatically geotagged tweets

Zenodo (CERN European Organization for Nuclear Research)

Understanding Public Opinions from Geosocial Media

ISPRS international journal of geo-information

EpiMob: Interactive Visual Analytics of Citywide Human Mobility Restrictions for Epidemic Control

Viewing the Progression of the Novel Corona Virus (COVID-19) with NewsStand

HisVA: A Visual Analytics System for Studying History

Origin-Destination Data: a prototype and related scenarios

Revista Brasileira de Computação Aplicada


A fast WebAssembly interpreter and the most universal WASM runtime

Twine: An Embedded Trusted Runtime for WebAssembly

A fast in-place interpreter for WebAssembly

Femto-Containers: Lightweight Virtualization and Fault Isolation For
  Small Software Functions on Low-Power IoT Microcontrollers

Femto-Containers: DevOps on Microcontrollers with Lightweight Virtualization & Isolation for IoT Software Modules

Characterizing and Detecting WebAssembly Runtime Bugs

At the Edge of a Seamless Cloud Experience

VM Matters: A Comparison of WASM VMs and EVMs in the Performance of Blockchain Smart Contracts


Scripts for fine-tuning Meta Llama3 with composable FSDP & PEFT methods to cover single/multi-node GPUs. Supports default & custom datasets for applications such as summarization and Q&A. Supporting a number of candid inference solutions such as HF TGI, VLLM for local or cloud deployment. Demo apps to showcase Meta Llama3 for WhatsApp & Messenger.

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

Prometheus: Inducing Fine-grained Evaluation Capability in Language
  Models

Large Language Models Can Be Good Privacy Protection Learners

A Mutation-Based Method for Multi-Modal Jailbreaking Attack Detection

PAL: Proxy-Guided Black-Box Attack on Large Language Models

Quartet Logic: A Four-Step Reasoning (QLFR) framework for advancing
  Short Text Classification

Can AI Assistants Know What They Don't Know?


Astrophysical Multipurpose Software Environment. This is the main repository  for AMUSE

The evolution of hierarchical triple star-systems

Rate of WD-WD head-on collisions in isolated triples is too low to explain standard type Ia supernovae

On the survivability of planets in young massive clusters and its implication of planet orbital architectures in globular clusters

Secular dynamics of hierarchical multiple systems composed of nested binaries, with an arbitrary number of bodies and arbitrary hierarchical structure - II. External perturbations: flybys and supernovae

Monthly Notices of the Royal Astronomical Society

The signatures of the parental cluster on field planetary systems

Collisional N-body Dynamics Coupled to Self-gravitating Magnetohydrodynamics Reveals Dynamical Binary Formation

Oort cloud Ecology

Capture of exocomets and the erosion of the Oort cloud due to stellar encounters in the Galaxy

Radiation shielding of protoplanetary discs in young star-forming regions

A MODEST review


Probabilistic reasoning and statistical analysis in TensorFlow

Masked Autoregressive Flow for Density Estimation

A General and Adaptive Robust Loss Function

TensorFlow Distributions

Generative Ensembles for Robust Anomaly Detection

What can I do here? A Theory of Affordances in Reinforcement Learning

RecSim NG: Toward Principled Uncertainty Modeling for Recommender Ecosystems

PyAutoFit: A Classy Probabilistic Programming Language for Model Composition and Fitting

Probabilistic programming with densities in SlicStan: efficient, flexible, and deterministic

Proceedings of the ACM on programming languages

Effect Handling for Composable Program Transformations in Edward2

Conditional Independence by Typing


MONAI Label is an intelligent open source image labeling and learning tool.

MONAI Label: A framework for AI-assisted Interactive Labeling of 3D
  Medical Images

DeepEdit: Deep Editable Learning for Interactive Segmentation of 3D Medical Images

ECONet: Efficient Convolutional Online Likelihood Network for Scribble-based Interactive Segmentation

Integrating Artificial Intelligence Tools in the Clinical Research Setting: The Ovarian Cancer Use Case

Adaptive Multi-scale Online Likelihood Network for AI-assisted
  Interactive Segmentation