Toolbox for including enzyme constraints on a genome-scale model.

Improving the phenotype predictions of a yeast genome‐scale metabolic model by incorporating enzymatic constraints

Reconstruction of a catalogue of genome-scale metabolic models with enzymatic constraints using GECKO 2.0

Conjugation dynamics depend on both the plasmid acquisition cost and the fitness cost

Metastatic triple negative breast cancer adapts its metabolism to destination tissues while retaining key metabolic signatures

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

Yeast metabolic innovations emerged via expanded metabolic network and gene positive selection

Diauxic lags explain unexpected coexistence in multi-resource environments

The Expanding Computational Toolbox for Engineering Microbial Phenotypes at the Genome Scale

A spatial model of the plant circadian clock reveals design principles for coordinated timing

Molecular profiling reveals features of clinical immunity and immunosuppression in asymptomatic P. falciparum malaria

Systematic discovery of protein interaction interfaces using AlphaFold and experimental validation


A Python Matplotlib, Numpy library to manage wind data, draw windrose (also known as a polar rose plot), draw probability density function and fit Weibull distribution


Merlin is a cross-platform post-exploitation HTTP/2 Command & Control  server and agent written in golang.

Clustered Federated Learning Architecture for Network Anomaly Detection
  in Large Scale Heterogeneous IoT Networks

Gotham Testbed: A Reproducible IoT Testbed for Security Experiments and Dataset Generation

PicoDomain: A Compact High-Fidelity Cybersecurity Dataset


Toolkit for working with RADIANCE for the ray-trace modeling of Bifacial Photovoltaics

The 2020 photovoltaic technologies roadmap

Validation of Bifacial Photovoltaic Simulation Software against Monitoring Data from Large-Scale Single-Axis Trackers and Fixed Tilt Systems in Denmark


Scripts to download genomes from the NCBI FTP servers

The antiSMASH database version 2: a comprehensive resource on secondary metabolite biosynthetic gene clusters

Viable bacterial colonization is highly limited in the human intestine in utero

Oxford Nanopore R10.4 long-read sequencing enables the generation of near-finished bacterial genomes from pure cultures and metagenomes without short-read or reference polishing

Consistent Metagenome-Derived Metrics Verify and Delineate Bacterial Species Boundaries

The antiSMASH database version 3: increased taxonomic coverage and new query features for modular enzymes

Bactopia: a flexible pipeline for complete analysis of bacterial genomes

Beneficial Endophytic Bacteria-Serendipita indica Interaction for Crop Enhancement and Resistance to Phytopathogens

The Oral Mouse Microbiome Promotes Tumorigenesis in Oral Squamous Cell Carcinoma

PanACoTA: a modular tool for massive microbial comparative genomics

Rapid ecosystem-scale consequences of acute deoxygenation on a Caribbean coral reef


A FHIR® Server with internal, fast CQL Evaluation Engine

The Architecture of a Feasibility Query Portal for Distributed COVID-19 Fast Healthcare Interoperability Resources (FHIR) Patient Data Repositories: Design and Implementation Study

A Framework for Criteria-Based Selection and Processing of Fast Healthcare Interoperability Resources (FHIR) Data for Statistical Analysis: Design and Implementation Study

Multi-Institutional Breast Cancer Detection Using a Secure On-Boarding Service for Distributed Analytics

APERITIF - Automatic Patient Recruiting for Clinical Trials Based on HL7 FHIR

Studies in health technology and informatics

An Extract-Transform-Load Process Design for the Incremental Loading of German Real-World Data Based on FHIR and OMOP CDM: Algorithm Development and Validation


Python code for Stellar Population Inference from Spectra and SEDs

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

How Well Can We Measure the Stellar Mass of a Galaxy: The Impact of the Assumed Star Formation History Model in SED Fitting

The Palomar Transient Factory Core-collapse Supernova Host-galaxy Sample. I. Host-galaxy Distribution Functions and Environment Dependence of Core-collapse Supernovae

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

The Extended IRTF Spectral Library: Expanded Coverage in Metallicity, Temperature, and Surface Gravity

The GOGREEN survey: post-infall environmental quenching fails to predict the observed age difference between quiescent field and cluster galaxies at z > 1

Monthly notices of the Royal Astronomical Society

A Study of Two Diffuse Dwarf Galaxies in the Field

The Art of Measuring Physical Parameters in Galaxies: A Critical
  Assessment of Spectral Energy Distribution Fitting Techniques

Signatures of Stellar Accretion in MaNGA Early-type Galaxies

A Massive Quiescent Galaxy Confirmed in a Protocluster at z = 3.09

A very luminous jet from the disruption of a star by a massive black hole


This is the top-level project for the PULP Platform. It instantiates a PULP open-source system with a PULP SoC (microcontroller) domain accelerated by a PULP cluster with 8 cores.

An IoT Endpoint System-on-Chip for Secure and Energy-Efficient Near-Sensor Analytics

Enabling Mixed-Precision Quantized Neural Networks in Extreme-Edge Devices

A Low-Power Transprecision Floating-Point Cluster for Efficient Near-Sensor Data Analytics

Marsellus: A Heterogeneous RISC-V AI-IoT End-Node SoC with 2-to-8b DNN
  Acceleration and 30%-Boost Adaptive Body Biasing


Google's differential privacy libraries.

Google COVID-19 Community Mobility Reports: Anonymization Process Description (version 1.0)

LinkedIn's Audience Engagements API

The journal of privacy and confidentiality

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

Exploring Design and Governance Challenges in the Development of Privacy-Preserving Computation

Proceedings of the 2021 CHI Conference on Human Factors in Computing Systems

Composition of Differential Privacy & Privacy Amplification by
  Subsampling

Connect the Dots: Tighter Discrete Approximations of Privacy Loss Distributions

FriendlyCore: Practical Differentially Private Aggregation

Multi-Epoch Matrix Factorization Mechanisms for Private Machine Learning

Privacy in targeted advertising: A survey

Precision-based attacks and interval refining: how to break, then fix,
  differential privacy on finite computers


Full description can be found here: https://discuss.huggingface.co/t/pretrain-gpt-neo-for-open-source-github-copilot-model/7678?u=ncoop57

The Pile: An 800GB Dataset of Diverse Text for Language Modeling

On the Utility of Prediction Sets in Human-AI Teams

Measuring Coding Challenge Competence With APPS

Large Language Models Meet NL2Code: A Survey

LLM is Like a Box of Chocolates: the Non-determinism of ChatGPT in Code
  Generation

SkCoder: A Sketch-based Approach for Automatic Code Generation

When Language Model Meets Private Library

Memorization and Generalization in Neural Code Intelligence Models

Large Language Model-Aware In-Context Learning for Code Generation

Private-Library-Oriented Code Generation with Large Language Models


a toolkit for working with Oxford nanopore data

Poretools: a toolkit for analyzing nanopore sequence data

MinION Analysis and Reference Consortium: Phase 1 data release and analysis

Computational methods for 16S metabarcoding studies using Nanopore sequencing data

Computational and structural biotechnology journal

SquiggleKit: a toolkit for manipulating nanopore signal data

The Dark Matter of Large Cereal Genomes: Long Tandem Repeats

International journal of molecular sciences


Scrapy, a fast high-level web crawling & scraping framework for Python.

Dark Patterns after the GDPR: Scraping Consent Pop-ups and Demonstrating their Influence

PROCEEDINGS OF THE 2020 CHI CONFERENCE ON HUMAN FACTORS IN COMPUTING SYSTEMS (CHI'20)

BugsInPy: a database of existing bugs in Python programs to enable controlled testing and debugging studies

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

Tackling Fake News Detection by Continually Improving Social Context Representations using Graph Neural Networks

Proceedings of the 60th Annual Meeting of the Association for Computational Linguistics (Volume 1: Long Papers)

A Comparative Study of Pretrained Language Models on Thai Social Text Categorization

Tackling Fake News Detection by Interactively Learning Representations using Graph Neural Networks

Proceedings of the First Workshop on Interactive Learning for Natural Language Processing

Creating and Evaluating Resources for Sentiment Analysis in the Low-resource Language: Sindhi

Workshop on Computational Approaches to Subjectivity, Sentiment and Social Media Analysis

Target-based Sentiment Annotation in Chinese Financial News

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

Word Embedding based New Corpus for Low-resourced Language: Sindhi

Pitfalls and guidelines for using time-based Git data

Tag Your Fish in the Broken Net: A Responsible Web Framework for
  Protecting Online Privacy and Copyright


Make human motion capture easier.

Neural Body: Implicit Neural Representations with Structured Latent Codes for Novel View Synthesis of Dynamic Humans

Fast and Robust Multi-Person 3D Pose Estimation from Multiple Views

Neural Human Performer: Learning Generalizable Radiance Fields for Human Performance Rendering

Structured Local Radiance Fields for Human Avatar Modeling

Reconstructing 3D Human Pose by Watching Humans in the Mirror

Motion Capture from Internet Videos

Dynamic Multi-Person Mesh Recovery From Uncalibrated Multi-View Cameras

AvatarCap: Animatable Avatar Conditioned Monocular Human Volumetric Capture

Novel View Synthesis of Human Interactions from Sparse Multi-view Videos

Special Interest Group on Computer Graphics and Interactive Techniques Conference Proceedings

NDF: Neural Deformable Fields for Dynamic Human Modelling


Tools for power spectra estimation

CMB power spectra and cosmological parameters from Planck PR4 with CamSpec

Monthly Notices of the Royal Astronomical Society

The Atacama Cosmology Telescope: map-based noise simulations for DR6

Accurate estimation of angular power spectra for maps with correlated masks

The Simons Observatory: a new open-source power spectrum pipeline applied to the Planck legacy data

Journal of cosmology and astroparticle physics


A python package to read and calibrate NOAA and Metop AVHRR GAC and LAC data

A global historical twice-daily (daytime and nighttime) land surface temperature dataset produced by Advanced Very High Resolution Radiometer observations from 1981 to 2021


A library for lattice-based multiparty homomorphic encryption in Go

Advances and Open Problems in Federated Learning

POSEIDON: Privacy-Preserving Federated Neural Network Learning

Truly privacy-preserving federated analytics for precision medicine with multiparty homomorphic encryption

Homomorphic Encryption for Machine Learning in Medicine and Bioinformatics

BTS

Multiparty Homomorphic Encryption from Ring-Learning-with-Errors

Proceedings on Privacy Enhancing Technologies

ARK: Fully Homomorphic Encryption Accelerator with Runtime Data Generation and Inter-Operation Key Reuse

Drynx: Decentralized, Secure, Verifiable System for Statistical Queries and Machine Learning on Distributed Datasets

Scalable Privacy-Preserving Distributed Learning

Accelerating Fully Homomorphic Encryption Through Architecture-Centric Analysis and Optimization


Deezer source separation library including pretrained models.

Spleeter: a fast and efficient music source separation tool with pre-trained models

SPLEETER: A FAST AND STATE-OF-THE ART MUSIC SOURCE SEPARATION TOOL WITH PRE-TRAINED MODELS

TeleMelody: Lyric-to-Melody Generation with a Template-Based Two-Stage Method

DeepRapper: Neural Rap Generation with Rhyme and Rhythm Modeling

Paralinguistic singing attribute recognition using supervised machine learning for describing the classical tenor solo singing voice in vocal pedagogy

EURASIP journal on audio, speech, and music processing

J-MAC: Japanese multi-speaker audiobook corpus for speech synthesis

Benchmarks and leaderboards for sound demixing tasks

Research on Music Emotional Expression Based on Reinforcement Learning and Multimodal Information


A benchmark environment for fully cooperative human-AI performance.

Heterogeneous Multi-agent Zero-Shot Coordination by Coevolution

A Hierarchical Approach to Population Training for Human-AI Collaboration


A Julia package for large-scale tensor computations, with a hint of category theory

Chiral spin liquids on the kagome lattice with projected entangled simplex states

Grassmann time-evolving matrix product operators for equilibrium quantum impurity problems

On the Magnetization of the 120^∘ order of the Spin-1/2 Triangular
  Lattice Heisenberg Model: a DMRG revisit

Trimer states with ℤ_3 topological order in Rydberg atom
  arrays

Chiral spin liquids with projected Gaussian fermionic entangled pair states

Augmenting Density Matrix Renormalization Group with Disentanglers

Absence of Spin Liquid Phase in the J_1-J_2 Heisenberg model on the
  Square Lattice

The chiral Gross-Neveu model on the lattice via a Landau-forbidden phase transition

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


Calculate Root-mean-square deviation (RMSD) of two molecules, using rotation, in xyz or pdb format

Choosing the right molecular machine learning potential

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

Redox-Induced Gating of the Exchange Interactions in a Single Organic Diradical

Tailoring Hot Exciton Dynamics in 2D Hybrid Perovskites through Cation Modification

cgbind: A Python Module and Web App for Automated Metallocage Construction and Host-Guest Characterization

Journal of chemical information and modeling

Photo- and Collision-Induced Isomerization of a Charge-Tagged Norbornadiene–Quadricyclane System

The journal of physical chemistry letters

A highly unsaturated six-vertex amido-substituted silicon cluster

CATS (Coordinates of Atoms by Taylor Series): protein design with backbone flexibility in all locally feasible directions

Alchemical geometry relaxation

SILVR: Guided Diffusion for Molecule Generation


Single-cell mRNA quantification and differential analysis with Census

Characterization of the development of the mouse cochlear epithelium at the single cell level

Thyroid hormone regulates distinct paths to maturation in pigment cell lineages

Single-Cell Sequencing Reveals Types of Hepatopancreatic Cells and Haemocytes in Black Tiger Shrimp (Penaeus monodon) and Their Molecular Responses to Ammonia Stress

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

Journal of translational genetics and genomics

Epithelial Galectin-3 Induced the Mitochondrial Complex Inhibition and Cell Cycle Arrest of CD8+ T Cells in Severe/Critical COVID-19


Enrico helps you with your Fermi data analysis

The Blazar PG 1553+113 as a Binary System of Supermassive Black Holes

Multiwaveband quasi-periodic oscillation in the blazar 3C 454.3

Monthly notices of the Royal Astronomical Society

Enrico : a Python package to simplify Fermi-LAT analysis

High-energy Gamma-Ray Activity from V404 Cygni Detected by AGILE during the 2015 June Outburst

THE GAMMA-RAY SOURCE AGL J2241+4454 AS THE POSSIBLE COUNTERPART OF MWC 656

AGILE, Fermi, Swift, and GASP/WEBT multi-wavelength observations of the high-redshift blazar 4C +71.07 in outburst

The mid-2016 flaring activity of the flat spectrum radio quasar PKS 2023-07

X-ray and Gamma-ray Variability of NGC 1275


E3SM Diagnostics package

The E3SM Diagnostics Package (E3SM Diags v2.7): a Python-based diagnostics package for Earth system model evaluation


A ultra-high precision package for simulating radio interferometers in python on compute clusters.

Improved Constraints on the 21 cm EoR Power Spectrum and the X-Ray Heating of the IGM with HERA Phase I Observations

A unified calibration framework for 21 cm cosmology

New EoR power spectrum limits from MWA Phase II using the delay spectrum method and novel systematic rejection

Validation Solutions to the Full-sky Radio Interferometry Measurement Equation for Diffuse Emission

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

Precision Calibration of Radio Interferometers for 21 cm Cosmology with No Redundancy and Little Knowledge of Antenna Beams and the Radio Sky

All Sky Modelling Requirements for Bayesian 21 cm Power Spectrum
  Estimation with BayesEoR

The fhd polarised imaging pipeline: A new approach to widefield interferometric polarimetry

Publications of the Astronomical Society of Australia/Publications Astronomical Society of Australia

matvis: A matrix-based visibility simulator for fast forward modelling
  of many-element 21 cm arrays


ISA tools API

Measures for interoperability of phenotypic data: minimum information requirements and formatting

Community standards for open cell migration data

ISA API: An open platform for interoperable life science experimental metadata

Best practices and lessons learned from reuse of 4 patient-derived metabolomics datasets in Alzheimer's disease


XCFun: A library of exchange-correlation functionals with arbitrary-order derivatives

The DIRAC code for relativistic molecular calculations

All-electron fully relativistic Kohn-Sham theory for solids based on the Dirac-Coulomb Hamiltonian and Gaussian-type functions

Frozen-Density Embedding for including environmental effects in the
  Dirac-Kohn-Sham theory: an implementation based on density fitting and
  prototyping techniques


A full spaCy pipeline and models for scientific/biomedical documents.

ScispaCy: Fast and Robust Models for Biomedical Natural Language Processing

SIGBIOMED WORKSHOP ON BIOMEDICAL NATURAL LANGUAGE PROCESSING (BIONLP 2019)

Annotating and Extracting Synthesis Process of All-Solid-State Batteries from Scientific Literature

CovidPubGraph: A FAIR Knowledge Graph of COVID-19 Publications

Named Entities in Medical Case Reports: Corpus and Experiments

Simple Questions Generate Named Entity Recognition Datasets

MedDistant19: Towards an Accurate Benchmark for Broad-Coverage
  Biomedical Relation Extraction

Rethinking Document-Level Relation Extraction: A Reality Check

Identify Novel Elements of Knowledge with Word Embedding

Zenodo (CERN European Organization for Nuclear Research)

EasyNER: A Customizable Easy-to-Use Pipeline for Deep Learning- and
  Dictionary-based Named Entity Recognition from Medical Text

S’entendre sur la langue


Library for Digital Pathology Image Processing

HistoCartography: A Toolkit for Graph Analytics in Digital Pathology

AI slipping on tiles: data leakage in digital pathology

Quantification of the Immune Content in Neuroblastoma: Deep Learning and Topological Data Analysis in Digital Pathology

International journal of molecular sciences

Interpretable histopathology-based prediction of disease relevant
  features in Inflammatory Bowel Disease biopsies using weakly-supervised deep
  learning


:bouncing_ball_person: Pytorch ReID: A tiny, friendly, strong pytorch implement of person re-id / vehicle re-id baseline. Tutorial https://github.com/layumi/Person_reID_baseline_pytorch/tree/master/tutorial

Swin Transformer: Hierarchical Vision Transformer using Shifted Windows

Random Erasing Data Augmentation

In Defense of the Triplet Loss for Person Re-Identification

Deep Metric Learning via Lifted Structured Feature Embedding

Deep Learning for Person Re-identification: A Survey and Outlook

Bag of Tricks and A Strong Baseline for Deep Person Re-identification

Joint Discriminative and Generative Learning for Person Re-identification

Circle Loss: A Unified Perspective of Pair Similarity Optimization

Two at Once: Enhancing Learning and Generalization Capacities via IBN-Net

VehicleNet: Learning Robust Visual Representation for Vehicle Re-Identification


A deep neural net toolkit for emotion analysis via Facial Expression Recognition (FER)

Social Navigation in a Cognitive Architecture Using Dynamic Proxemic Zones

Masked Linear Regression for Learning Local Receptive Fields for Facial Expression Synthesis

International journal of computer vision

A psychophysics approach for quantitative comparison of interpretable computer vision models.

Images, Emotions, and Credibility: Effect of Emotional Facial Expressions on Perceptions of News Content Bias and Source Credibility in Social Media

A ROS-based Framework for Monitoring Human and Robot Conditions in a
  Human-Multi-robot Team

Pixel-based Facial Expression Synthesis


A set of useful perceptually uniform colormaps for plotting scientific data

Dim but not entirely dark: Extracting the Galactic Center Excess' source-count distribution with neural nets

Deep Colormap Extraction from Visualizations

The Earth Mover's Pinball Loss: Quantiles for Histogram-Valued Regression


pyKT: A Python Library to Benchmark Deep Learning based Knowledge Tracing Models

Enhancing Deep Knowledge Tracing with Auxiliary Tasks

simpleKT: A Simple But Tough-to-Beat Baseline for Knowledge Tracing


A cool place to store your Hi-C

HiGlass: web-based visual exploration and analysis of genome interaction maps

Cooler: scalable storage for Hi-C data and other genomically-labeled arrays

A Mechanism of Cohesin-Dependent Loop Extrusion Organizes Zygotic Genome Architecture

Molecular basis of CTCF binding polarity in genome folding

SMC complexes differentially compact mitotic chromosomes according to genomic context

Spatially clustered loci with multiple enhancers are frequent targets of HIV-1 integration

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

Cohesin residency determines chromatin loop patterns

Chromatin compartment dynamics in a haploinsufficient model of cardiac laminopathy

The journal of cell biology/The Journal of cell biology

Analysis of 3D genomic interactions identifies candidate host genes that transposable elements potentially regulate


A flexible framework for solving PDEs with modern spectral methods.

Single-hemisphere Dynamos in M-dwarf Stars

Learning in latent spaces improves the predictive accuracy of deep
  neural operators

The photometric variability of massive stars due to gravity waves excited by core convection

Marginally-Stable Thermal Equilibria of Rayleigh-Bénard Convection

Rotation Reduces Convective Mixing in Jupiter and Other Gas Giants


Ethereum Token Contracts

Harvey: A Greybox Fuzzer for Smart Contracts

Targeted Greybox Fuzzing with Static Lookahead Analysis

Learning Inputs in Greybox Fuzzing

TokenHook: Secure ERC-20 smart contract.

Psamathe: A DSL with Flows for Safe Blockchain Assets


Retro Games in Gym

An Introduction to Deep Reinforcement Learning

Foundations and trends in machine learning

A Survey of Deep Reinforcement Learning in Video Games

The Faults in Our Pi Stars: Security Issues and Open Challenges in Deep Reinforcement Learning


A GPT-empowered penetration testing tool

From ChatGPT to ThreatGPT: Impact of Generative AI in Cybersecurity and Privacy

Self-Deception: Reverse Penetrating the Semantic Firewall of Large
  Language Models


Efficient Training (including pre-training and fine-tuning) for Big Models

A Survey of Large Language Models

A Comprehensive Overview of Large Language Models

On Efficient Training of Large-Scale Deep Learning Models: A Literature
  Review

BMCook: A Task-agnostic Compression Toolkit for Big Models

Proceedings of the 2022 Conference on Empirical Methods in Natural Language Processing: System Demonstrations

OpenDelta: A Plug-and-play Library for Parameter-efficient Adaptation of Pre-trained Models


NumPy & SciPy for GPU

ChainerCV: a Library for Deep Learning in Computer Vision

On Distribution Shift in Learning-based Bug Detectors

Iterative static field map estimation for off‐resonance correction in non‐Cartesian susceptibility weighted imaging

Long-Range Nonequilibrium Coherent Tunneling Induced by Fractional Vibronic Resonances

Changes from the Trenches: Should We Automate Them?

2D Simplified Wildfire Spreading Model in Python: From NumPy to CuPy

Accelerating Spectroscopic Data Processing Using Python and GPUs on NERSC Supercomputers

Proceedings of the Python in Science Conferences


The Variable Infiltration Capacity (VIC) Macroscale Hydrologic Model

The Variable Infiltration Capacity model version 5 (VIC-5): infrastructure improvements for new applications and reproducibility

Climate-driven disturbances in the San Juan River sub-basin of the Colorado River

Accuracy evaluation of GPM multi-satellite precipitation products in the hydrological application over alpine and gorge regions with sparse rain gauge network

MOD-LSP, MODIS-based parameters for hydrologic modeling of North American land cover change

Integration of 2D Lateral Groundwater Flow into the Variable Infiltration Capacity (VIC) Model and Effects on Simulated Fluxes for Different Grid Resolutions and Aquifer Diffusivities

Quantifying the impacts of land cover change on hydrological responses in the Mahanadi river basin in India

Dual state/rainfall correction via soil moisture assimilation for improved streamflow simulation: evaluation of a large-scale implementation with Soil Moisture Active Passive (SMAP) satellite data

Ubiquitous increases in flood magnitude in the Columbia River basin under climate change

Concurrent Changes in Extreme Hydroclimate Events in the Colorado River Basin

A near-global, high resolution land surface parameter dataset for the variable infiltration capacity model


rSFSW2: A R package to create soil water balance simulation experiment


Learning to Enhance Low-Light Image via Zero-Reference Deep Curve Estimation

Underwater Image Enhancement via Medium Transmission-Guided Multi-Color Space Embedding

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

Low-Light Image and Video Enhancement Using Deep Learning: A Survey

DiffNet++: A Neural Influence and Interest Diffusion Network for Social Recommendation

Fourier Contour Embedding for Arbitrary-Shaped Text Detection

Robust Federated Learning with Noisy and Heterogeneous Clients

Towards Compact Single Image Super-Resolution via Contrastive Self-distillation

An Efficient Approach for Cross-Silo Federated Learning to Rank

International Conference on Data Engineering

Pareto Optimality for Fairness-constrained Collaborative Filtering


QIIME 2 plugin wrapping DADA2

Insights into the gut microbiota of Nigerian elderly with type 2 diabetes and non-diabetic elderly persons

Rhizosphere Bacterial Community Response to Continuous Cropping of Tibetan Barley

Impacts of Continuous Cropping on Fungal Communities in the Rhizosphere Soil of Tibetan Barley

Monthly dynamics of microbial communities and variation of nitrogen-cycling genes in an industrial-scale expanded granular sludge bed reactor

Reproducible acquisition, management and meta-analysis of nucleotide sequence (meta)data using q2-fondue


PROGRESS: Parallel, Rapid O(N) and Graph-based Recursive Electronic Structure Solver.

Exascale applications: skin in the game

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

Graph-based Quantum Response Theory and Shadow Born-Oppenheimer
  Molecular Dynamics

A fast, dense Chebyshev solver for electronic structure on GPUs


A Privacy-Preserving Framework Based on TensorFlow

FedLab: A Flexible Federated Learning Framework

A Survey of Trustworthy Federated Learning with Perspectives on Security, Robustness and Privacy

Towards Secure and Practical Machine Learning via Secret Sharing and
  Random Permutation

Zero-knowledge Proof Meets Machine Learning in Verifiability: A Survey

MORSE-STF: A Privacy Preserving Computation System.

Morse-STF: Improved Protocols for Privacy-Preserving Machine Learning


Some data analysis tools for working with historical PV solar time-series data sets.

Signal Processing on PV Time-Series Data: Robust Degradation Analysis Without Physical Models

Estimation of Soiling Losses in Unlabeled PV Data


A CRF-based ASR Toolkit

CRF-based Single-stage Acoustic Modeling with CTC Topology

International Conference on Acoustics, Speech, and Signal Processing

CTC Variations Through New WFST Topologies

CAT: A CTC-CRF based ASR Toolkit Bridging the Hybrid and the End-to-end Approaches towards Data Efficiency and Low Latency

CUSIDE: Chunking, Simulating Future Context and Decoding for Streaming ASR

Multilingual and Crosslingual Speech Recognition Using Phonological-Vector Based Phone Embeddings

CAT: CRF-based ASR Toolkit

Advancing CTC-CRF Based End-to-End Speech Recognition with Wordpieces and Conformers


Python Geometrical Morphing

Dimension reduction in heterogeneous parametric spaces with application to naval engineering shape design problems

Advanced modeling and simulation in engineering sciences

Combined Parameter and Model Reduction of Cardiovascular Problems by Means of Active Subspaces and POD-Galerkin Methods

Shape Optimization by Means of Proper Orthogonal Decomposition and Dynamic Mode Decomposition

A non-intrusive approach for the reconstruction of POD modal coefficients through active subspaces

An integrated data-driven computational pipeline with model order reduction for industrial and applied mathematics

A Gaussian Process Regression approach within a data-driven POD framework for engineering problems in fluid dynamics

An efficient shape parametrisation by free-form deformation enhanced by active subspace for hull hydrodynamic ship design problems in open source environment

On the comparison of LES data-driven reduced order approaches for hydroacoustic analysis

Advances in Reduced Order Methods for Parametric Industrial Problems in
  Computational Fluid Dynamics

Basic Ideas and Tools for Projection-Based Model Reduction of Parametric Partial Differential Equations.


End-to-End Object Detection with Transformers

MaX-DeepLab: End-to-End Panoptic Segmentation with Mask Transformers

UP-DETR: Unsupervised Pre-training for Object Detection with Transformers

DAB-DETR: Dynamic Anchor Boxes are Better Queries for DETR

DiffusionDet: Diffusion Model for Object Detection

Multimodal Chain-of-Thought Reasoning in Language Models

Panoptic SegFormer: Delving Deeper into Panoptic Segmentation with Transformers

Learnable Fourier Features for Multi-Dimensional Spatial Positional Encoding

Estimating and Evaluating Regression Predictive Uncertainty in Deep Object Detectors

Hopper: Multi-hop Transformer for Spatiotemporal Reasoning


Extensible specification for representing and uniquely identifying biological sequence variation

GA4GH: International policies and standards for data sharing across genomic research and healthcare

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

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

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


Android Application Identifier for Packers, Protectors, Obfuscators and Oddities - PEiD for Android

Beyond the virus: a first look at coronavirus-themed Android malware

Beyond the Virus: A First Look at Coronavirus-themed Mobile Malware

A First Look at Android Applications in Google Play related to Covid-19

DroidPDF: The Obfuscation Resilient Packer Detection Framework for Android Apps

A Multi-Tier Security Analysis of Official Car Management Apps for Android

Empirical Security and Privacy Analysis of Mobile Symptom Checking Apps on Google Play

SECRYPT 2021: PROCEEDINGS OF THE 18TH INTERNATIONAL CONFERENCE ON SECURITY AND CRYPTOGRAPHY

FirmwareDroid: Security Analysis of the Android Firmware EcoSystem


Tools for building power systems optimization problems

Scalable preconditioning of block-structured linear algebra systems using ADMM

Decision making under uncertainty for deploying battery storage as a non-wire alternative in distribution networks


Read and write Neuroglancer datasets programmatically.

Functional connectomics spanning multiple areas of mouse visual cortex

Cellular anatomy of the mouse primary motor cortex

Convolutional nets for reconstructing neural circuits from brain images acquired by serial section electron microscopy

Petascale neural circuit reconstruction: automated methods

The Brain Observatory Storage Service and Database (BossDB): A Cloud-Native Approach for Petascale Neuroscience Discovery

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

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

Deep Lake: a Lakehouse for Deep Learning

CAVE: Connectome Annotation Versioning Engine

bioRxiv : the preprint server for biology


Antimicrobial Resistance Identification By Assembly

Rapid Methods for Antimicrobial Resistance Diagnostics

Detection of vancomycin-resistant Enterococcus faecium hospital-adapted lineages in municipal wastewater treatment plants indicates widespread distribution and release into the environment

Comparison of classical multi-locus sequence typing software for next-generation sequencing data

European Chlamydia abortus livestock isolate genomes reveal unusual stability and limited diversity, reflected in geographical signatures

Genome plasticity favours double chromosomal Tn4401b-blaKPC-2 transposon insertion in the Pseudomonas aeruginosa ST235 clone

Genome-Based Analysis of Enterococcus faecium Bacteremia Associated with Recurrent and Mixed-Strain Infection

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

Epidemiological and Molecular Characterization of an Invasive Group A Streptococcus emm32.2 Outbreak

First Report and Comparative Genomics Analysis of a blaOXA-244-Harboring Escherichia coli Isolate Recovered in the American Continent

Pilot Evaluation of a Fully Automated Bioinformatics System for Analysis of Methicillin-Resistant Staphylococcus aureus Genomes and Detection of Outbreaks


:fire: 2D and 3D Face alignment library build using pytorch

How far are we from solving the 2D & 3D Face Alignment problem? (and a dataset of 230,000 3D facial landmarks)

International Conference on Computer Vision

Lips Don't Lie: A Generalisable and Robust Approach to Face Forgery Detection

Learning Spatial Attention for Face Super-Resolution

G3AN: Disentangling Appearance and Motion for Video Generation

Two-Stage Convolutional Part Heatmap Regression for the 1st 3D Face Alignment in the Wild (3DFAW) Challenge

Leveraging Real Talking Faces via Self-Supervision for Robust Forgery Detection

The 1st Challenge on Remote Physiological Signal Sensing (RePSS)

3D-FM GAN: Towards 3D-Controllable Face Manipulation

SVTS: Scalable Video-to-Speech Synthesis

Neuron Structure Modeling for Generalizable Remote Physiological Measurement


Neural machine translation and sequence learning using TensorFlow

Self-Attention with Relative Position Representations

Semantic Neural Machine Translation using AMR

Transactions of the Association for Computational Linguistics

Boosting Neural Machine Translation with Similar Translations

Guided Alignment Training for Topic-Aware Neural Machine Translation

Towards Automating Code Review Activities

Contextual Handling in Neural Machine Translation: Look Behind, Ahead and on Both Sides

European Association for Machine Translation Conferences/Workshops

Transfer Learning in Multilingual Neural Machine Translation with Dynamic Vocabulary

Multilingual Neural Machine Translation for Zero-Resource Languages

Revisiting Multi-Domain Machine Translation

Zenodo (CERN European Organization for Nuclear Research)

OpenNMT System Description for WNMT 2018: 800 words/sec on a single-core CPU

NEURAL MACHINE TRANSLATION AND GENERATION


Coordinate- and image-based meta-analysis in Python

NiMARE: Neuroimaging Meta-Analysis Research Environment

Functional topography of anger and aggression in the human cerebellum

The human cerebellum in reward anticipation and outcome processing: An activation likelihood estimation meta-analysis

Neuroscout, a unified platform for generalizable and reproducible fMRI research

Revealing the neurobiology underlying interpersonal neural synchronization with multimodal data fusion

An Ontological Framework to Facilitate Early Detection of ‘Radicalization’ (OFEDR)—A Three World Perspective

The involvement of brain regions associated with lower KPS and shorter survival time predicts a poor prognosis in glioma


Evaluation of OpenAI Codex for HPC Parallel Programming Models Kernel Generation

Proceedings of the 52nd International Conference on Parallel Processing Workshops

GPU First -- Execution of Legacy CPU Codes on GPUs


R package for DNA methylation analysis

Genomic basis of high-altitude adaptation in Tibetan Prunus fruit trees

Epigenetics and Early Life Stress: Experimental Brood Size Affects DNA Methylation in Great Tits (Parus major)

Mutation, methylation, and gene expression profiles in dup(1q)-positive pediatric B-cell precursor acute lymphoblastic leukemia

Reduced non-CpG methylation is a potential epigenetic target after spinal cord injury


C++ library for zkSNARKs

Advances and Open Problems in Federated Learning

Untangling Blockchain: A Data Processing View of Blockchain Systems

DECO: Liberating Web Data Using Decentralized Oracles for TLS

Conference on Computer and Communications Security

A blockchain-based scheme for privacy-preserving and secure sharing of medical data

VeriML: Enabling Integrity Assurances and Fair Payments for Machine Learning as a Service

zkBridge: Trustless Cross-chain Bridges Made Practical

Non-Interactive Zero-Knowledge for Blockchain: A Survey

ZETH: On Integrating Zerocash on Ethereum

ZKlaims: Privacy-preserving Attribute-based Credentials using Non-interactive Zero-knowledge Techniques

PROCEEDINGS OF THE 16TH INTERNATIONAL JOINT CONFERENCE ON E-BUSINESS AND TELECOMMUNICATIONS, VOL 2: SECRYPT

SEAL: A Strategy-Proof and Privacy-Preserving UAV Computation Offloading Framework


An index of algorithms for learning causality with data

A Survey of Learning Causality with Data: Problems and Methods

A Review of the Role of Causality in Developing Trustworthy AI Systems


A microbenchmark support library

The Double Sphere Camera Model

Object Detection in Point Clouds Using Conformal Geometric Algebra

Guidelines for Experimental Algorithmics: A Case Study in Network Analysis

Assessing Performance Implications of Deep Copy Operations via
  Microbenchmarking

GeantV: Results from the prototype of concurrent vector particle transport simulation in HEP

ArborX: A Performance Portable Geometric Search Library

Software-based data acquisition and processing for neutron detectors at European Spallation Source—early experience from four detector designs

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

Benanza: Automatic μBenchmark Generation to Compute "Lower-bound" Latency and Inform Optimizations of Deep Learning Models on GPUs

International Parallel and Distributed Processing Symposium

Polylidar3D -- Fast Polygon Extraction from 3D Data


Probabilistic time series modeling in Python

GluonTS: Probabilistic Time Series Models in Python

Fixed-Budget Best-Arm Identification in Structured Bandits

Monte Carlo EM for Deep Time Series Anomaly Detection

Diverse Counterfactual Explanations for Anomaly Detection in Time Series


Astropy package for region handling

astroquery: An Astronomical Web-querying Package in Python

SRG/eROSITA and XMM-Newton observations of Vela Jr


The X-Plane Communications Toolbox is a research tool used to interact with the X-Plane flight simulator

DRAGON-V: Detection and Recognition of Airplane Goals with Navigational Visualization

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

AVOIDDS: Aircraft Vision-based Intruder Detection Dataset and Simulator

Falsification of a Vision-based Automatic Landing System

Learning to Have a Civil Aircraft Take Off under Crosswind Conditions by Reinforcement Learning with Multimodal Data and Preprocessing Data

SoRTS: Learned Tree Search for Long Horizon Social Robot Navigation


Attempt at tracking states of the arts and recent results (bibliography) on speech recognition.

WER we are and WER we think we are

Investigating Self-supervised Pretraining Frameworks for Pathological Speech Recognition

The History of Speech Recognition to the Year 2030

Text-To-Speech Data Augmentation for Low Resource Speech Recognition


A framework for performing optical propagation simulations, meant for high contrast imaging, in Python.

High Contrast Imaging for Python (HCIPy): an open-source adaptive optics and coronagraph simulator

Origin of the asymmetry of the wind driven halo observed in high-contrast images

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

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

Focal-plane wavefront sensing with the vector-Apodizing Phase Plate


PyPSA-Eur-Sec: A Sector-Coupled Open Optimisation Model of the European Energy System

The potential role of a hydrogen network in Europe


LAVIS - A One-stop Library for Language-Vision Intelligence

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

BLIP-2: Bootstrapping Language-Image Pre-training with Frozen Image
  Encoders and Large Language Models

Align before Fuse: Vision and Language Representation Learning with Momentum Distillation

InstructBLIP: Towards General-purpose Vision-Language Models with
  Instruction Tuning

mPLUG-Owl: Modularization Empowers Large Language Models with
  Multimodality

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

ViperGPT: Visual Inference via Python Execution for Reasoning

Instruction Tuning for Large Language Models: A Survey

BLIP-Diffusion: Pre-trained Subject Representation for Controllable
  Text-to-Image Generation and Editing

From Images to Textual Prompts: Zero-shot Visual Question Answering with Frozen Large Language Models


The Pharmacogenomic Clinical Annotation Tool

Pharmacogenetics at scale: An analysis of the UK Biobank

Pharmacogenomics Clinical Annotation Tool (PharmCAT)

PharmVIP: A Web-Based Tool for Pharmacogenomic Variant Analysis and Interpretation

Genetic Variation among Pharmacogenes in the Sardinian Population

International journal of molecular sciences


A Julia framework for invertible neural networks

Preconditioned training of normalizing flows for variational inference in inverse problems

Parameterizing uncertainty by deep invertible networks, an application to reservoir characterization

Reliable amortized variational inference with physics-based latent distribution correction

Learning by example: fast reliability-aware seismic imaging with
  normalizing flows


Inclusive model of expression dynamics with conventional or metabolic labeling based scRNA-seq / multiomics, vector field reconstruction and differential geometry analyses

Mapping Transcriptomic Vector Fields of Single Cells

Massively parallel and time-resolved RNA sequencing in single cells with scNT-seq

Spatiotemporally resolved transcriptomics reveals the subcellular RNA kinetic landscape


MACS -- Model-based Analysis of ChIP-Seq

ChIP-seq guidelines and practices of the ENCODE and modENCODE consortia

Conserved epigenomic signals in mice and humans reveal immune basis of Alzheimer’s disease

β-Glucan Reverses the Epigenetic State of LPS-Induced Immunological Tolerance

Arabidopsis basic helix-loop-helix transcription factors MYC2, MYC3, and MYC4 regulate glucosinolate biosynthesis, insect performance, and feeding behavior.

The Implication of Early Chromatin Changes in X Chromosome Inactivation

Chromatin and Single-Cell RNA-Seq Profiling Reveal Dynamic Signaling and Metabolic Transitions during Human Spermatogonial Stem Cell Development

The long non-coding RNA Paupar regulates the expression of both local and distal genes

The long non-coding RNA Dali is an epigenetic regulator of neural differentiation

CTCF mediates chromatin looping via N-terminal domain-dependent cohesin retention

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

Glucocorticoid receptor binds half sites as a monomer and regulates specific target genes


Aliro: AI-Driven Data Science

A System for Accessible Artificial Intelligence

Evaluating recommender systems for AI-driven biomedical informatics

Aliro: an automated machine learning tool leveraging large language models


Scalable Image Analysis and Shape Modelling

Gaussian Process Morphable Models

AirLab: Autograd Image Registration Laboratory

A Closest Point Proposal for MCMC-based Probabilistic Surface Registration

Bone Surface Reconstruction and Clinical Features Estimation from Sparse Landmarks and Statistical Shape Models: A feasibility study on the femur

Patient-specific Conditional Joint Models of Shape, Image Features and Clinical Indicators

Developing Patient-Specific Statistical Reconstructions of Healthy Anatomical Structures to Improve Patient Outcomes

Automatic Modelling of Human Musculoskeletal Ligaments -- Framework Overview and Model Quality Evaluation


Eukaryotic Genome Annotation Pipeline

Emergence of the Ug99 lineage of the wheat stem rust pathogen through somatic hybridisation

Malassezia vespertilionis sp. nov.: a new cold-tolerant species of yeast isolated from bats

Extreme sensitivity to ultraviolet light in the fungal pathogen causing white-nose syndrome of bats

De novo assembly and phasing of dikaryotic genomes from two isolates of Puccinia coronata f. sp. avenae, the causal agent of oat crown rust

Raphidocelis subcapitata (=Pseudokirchneriella subcapitata) provides an insight into genome evolution and environmental adaptations in the Sphaeropleales

Psychoactive plant- and mushroom-associated alkaloids from two behavior modifying cicada pathogens

Insight into the Recent Genome Duplication of the Halophilic Yeast Hortaea werneckii: Combining an Improved Genome with Gene Expression and Chromatin Structure

Characterization of Aspergillus niger Isolated from the International Space Station

Chromosome level assembly and secondary metabolite potential of the parasitic fungus Cordyceps militaris

Reconstruction of ancient homeobox gene linkages inferred from a new high-quality assembly of the Hong Kong oyster (Magallana hongkongensis) genome


AstroDrizzle for HST images.

Discovery and properties of ultra-high redshift galaxies (9 < z < 12) in the JWST ERO SMACS 0723 Field

Panic! at the Disks: First Rest-frame Optical Observations of Galaxy Structure at z > 3 with JWST in the SMACS 0723 Field

Compact, bulge-dominated structures of spectroscopically confirmed quiescent galaxies at z ≈ 3

Monthly Notices of the Royal Astronomical Society

The JWST Hubble Sequence: The Rest-Frame Optical Evolution of Galaxy
  Structure at $1.5 < z < 8$

NGDEEP Epoch 1: The Faint-End of the Luminosity Function at z ∼
  9-12 from Ultra-Deep JWST Imaging

EPOCHS VI: The Size and Shape Evolution of Galaxies since z ~ 8 with
  JWST Observations

EPOCHS Paper II: The Ultraviolet Luminosity Function from 7.5<z<13.5
  using 110 square arcminutes of deep, blank-field data from the PEARLS Survey
  and Public Science Programmes

Weak gravitational lensing shear estimation with metacalibration for the Roman High-Latitude Imaging Survey

The Initial Mass Function of Low-mass Stars and Brown Dwarfs in the W3 Complex

Star Formation and AGN Activity 500 Myr after the Big Bang: Insights from JWST


Tools for using the Kinect One (Kinect v2) in ROS

Choosing Smartly: Adaptive Multimodal Fusion for Object Detection in Changing Environments

The Freiburg Groceries Dataset

Detection and Compensation of Degeneracy Cases for IMU-Kinect Integrated Continuous SLAM with Plane Features

Automatic Calibration of an Industrial RGB-D Camera Network Using Retroreflective Fiducial Markers

Embedded Processing and Compression of 3D Sensor Data for Large Scale Industrial Environments

Cutting Pose Prediction from Point Clouds

Simultaneous Material Segmentation and 3D Reconstruction in Industrial Scenarios


Main development repository for TinyOS (an OS for embedded, wireless devices).

A Beaconless Asymmetric Energy-Efficient Time Synchronization Scheme for Resource-Constrained Multi-Hop Wireless Sensor Networks

Towards Touch-to-Access Device Authentication Using Induced Body Electric Potentials

MOBICOM'19: PROCEEDINGS OF THE 25TH ANNUAL INTERNATIONAL CONFERENCE ON MOBILE COMPUTING AND NETWORKING

A Comprehensive Study on LPWANs With a Focus on the Potential of LoRa/LoRaWAN Systems

IEEE Communications surveys and tutorials/IEEE communications surveys and tutorials

Performance Analysis of Time Synchronization Protocols in Wireless Sensor Networks

D-Box: DMA-enabled Compartmentalization for Embedded Applications

Proceedings 2022 Network and Distributed System Security Symposium

Link quality estimation for arbitrary packet sizes over wireless links using packet reception events

International journal of communication systems

Design Considerations for Low Power Internet Protocols

A protocol architecture for energy efficient and pervasive eHealth systems

IEEE-EMBS International Conference on Biomedical and Health Informatics

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

Clock Skew Compensation Algorithm Immune to Floating-Point Precision Loss


MACE - Fast and accurate machine learning interatomic potentials with higher order equivariant message passing.

MACE: Higher Order Equivariant Message Passing Neural Networks for Fast
  and Accurate Force Fields

Evaluation of the MACE Force Field Architecture: from Medicinal
  Chemistry to Materials Science

ACEpotentials.jl: A Julia Implementation of the Atomic Cluster Expansion

A foundation model for atomistic materials chemistry

Data efficiency and extrapolation trends in neural network interatomic potentials

MACE-OFF23: Transferable Machine Learning Force Fields for Organic
  Molecules

Matbench Discovery -- A framework to evaluate machine learning crystal stability predictions

Beyond MD17: the reactive xxMD dataset


Conditional GAN for generating synthetic tabular data.

TabDDPM: Modelling Tabular Data with Diffusion Models

Tabular GANs for uneven distribution

Towards Automated Imbalanced Learning with Deep Hierarchical Reinforcement Learning

Turning the Tables: Biased, Imbalanced, Dynamic Tabular Datasets for ML
  Evaluation

Standardised Metrics and Methods for Synthetic Tabular Data Evaluation

Mixed-Type Tabular Data Synthesis with Score-based Diffusion in Latent
  Space

Synthesising Multi-Modal Minority Samples for Tabular Data

Generative Trees: Adversarial and Copycat

On Meritocracy in Optimal Set Selection

ConvGeN: Convex space learning improves deep-generative oversampling for
  tabular imbalanced classification on smaller datasets


Make Complex Heatmaps

Structural and Functional Analysis of the GRAS Gene Family in Grapevine Indicates a Role of GRAS Proteins in the Control of Development and Stress Responses

Spatio-Temporal Interdependence of Bacteria and Phytoplankton during a Baltic Sea Spring Bloom

MicroRNA-27a-5p regulation by promoter methylation and MYC signaling in prostate carcinogenesis

A Landscape of Murine Long Non-Coding RNAs Reveals the Leading Transcriptome Alterations in Adipose Tissue during Aging

The cytidine deaminase APOBEC3G drives cancer mutagenesis and clonal evolution in bladder cancer

Active DNA demethylation regulates tracheary element differentiation in Arabidopsis

Genome-Wide Identification and Characterization of wALOG Family Genes Involved in Branch Meristem Development of Branching Head Wheat

ATP11B inhibits breast cancer metastasis in a mouse model by suppressing externalization of nonapoptotic phosphatidylserine

The Journal of clinical investigation/The journal of clinical investigation

Comparative Analysis of Public RNA-Sequencing Data from Human Intestinal Enteroid (HIEs) Infected with Enteric RNA Viruses Identifies Universal and Virus-Specific Epithelial Responses

caOmicsV: an R package for visualizing multidimensional cancer genomic data


Graph Signal Processing in Python

The emerging field of signal processing on graphs: Extending high-dimensional data analysis to networks and other irregular domains

Graph Signal Processing: Overview, Challenges and Applications

DeepSphere: Efficient spherical convolutional neural network with HEALPix sampling for cosmological applications

Semi-Implicit Graph Variational Auto-Encoders

DeepSphere: a graph-based spherical CNN

Understanding Pooling in Graph Neural Networks

Vector-Valued Graph Trend Filtering With Non-Convex Penalties

IEEE transactions on signal and information processing over networks

DeepSphere: towards an equivariant graph-based spherical CNN

Learning Graph Cellular Automata

A computational framework for modeling complex sensor network data using graph signal processing and graph neural networks in structural health monitoring


Graph+Semantics: Import/Export RDF from Neo4j. SHACL Validation, Model mapping and more.... If you like it, please ★ ⇧

Open Research Knowledge Graph: Next Generation Infrastructure for Semantic Scholarly Knowledge

An overview of graph databases and their applications in the biomedical domain

Database : the journal of biological databases and curation

Design and Implementation of an Ontology for Semantic Labeling and Testing: Automotive Global Ontology (AGO)

Open Research Knowledge Graph: Towards Machine Actionability in Scholarly Communication

Enhancing Profile and Context Aware Relevant Food Search through Knowledge Graphs

PREC: semantic translation of property graphs

A Pattern Mining Method for Teaching Practices

Graph Node Embeddings using Domain-Aware Biased Random Walks


A high-performance topological machine learning toolbox in Python

giotto-tda: A Topological Data Analysis Toolkit for Machine Learning and Data Exploration

On the stability of persistent entropy and new summary functions for topological data analysis

Learning Hyperbolic Representations of Topological Features

Homological Time Series Analysis of Sensor Signals from Power Plants

Topic Modeling With Topological Data Analysis

Proceedings of the 2022 Conference on Empirical Methods in Natural Language Processing


An EPANET compatible python package to simulate and analyze water distribution networks under disaster scenarios.

Multi-scale planning model for robust urban drought response


AutoML tools chain

AutoML: A survey of the state-of-the-art

CurveLane-NAS: Unifying Lane-Sensitive Architecture Search and Adaptive Point Blending

Neural Architecture Generator Optimization

VEGA: Towards an End-to-End Configurable AutoML Pipeline

An Asymptotically Optimal Multi-Armed Bandit Algorithm and Hyperparameter Optimization.


AgentVerse  is designed to facilitate the deployment of multiple LLM-based agents in various applications, which primarily provides two frameworks: task-solving and simulation

MetaGPT: Meta Programming for A Multi-Agent Collaborative Framework

ChatEval: Towards Better LLM-based Evaluators through Multi-Agent Debate

AgentVerse: Facilitating Multi-Agent Collaboration and Exploring
  Emergent Behaviors

Cognitive Architectures for Language Agents

LLM As DBA

AI for social science and social science of AI: A Survey

D-Bot: Database Diagnosis System using Large Language Models


Tracking and object-based analysis of clouds

Aerosol effects on deep convection: the propagation of aerosol perturbations through convective cloud microphysics

tobac 1.2: towards a flexible framework for tracking and analysis of clouds in diverse datasets

Characteristics of Deep Convective Systems and Initiation during Warm Seasons over China and Its Vicinity

Optimizing radar scan strategies for tracking isolated deep convection using observing system simulation experiments

Aerosol–cloud impacts on aerosol detrainment and rainout in shallow maritime tropical clouds


Home page of project "KB"

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

Detection, assessment and mitigation of vulnerabilities in open source dependencies

A comparative study of vulnerability reporting by software composition analysis tools

Proceedings of the 15th ACM / IEEE International Symposium on Empirical Software Engineering and Measurement (ESEM)

SeqTrans: Automatic Vulnerability Fix Via Sequence to Sequence Learning

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

Multi-Granularity Detector for Vulnerability Fixes

A Survey on Automated Program Repair Techniques

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

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


MatConvNet: CNNs for MATLAB

Empowering Things With Intelligence: A Survey of the Progress, Challenges, and Opportunities in Artificial Intelligence of Things

Globally Tuned Cascade Pose Regression via Back Propagation with
  Application in 2D Face Pose Estimation and Heart Segmentation in 3D CT Images

Time-Delay Momentum: A Regularization Perspective on the Convergence and Generalization of Stochastic Momentum for Deep Learning


High performance nearest neighbor data structures (KDTree and BallTree) and algorithms for Julia.

Nearest neighbour distributions: New statistical measures for cosmological clustering

Monthly notices of the Royal Astronomical Society

Julia Language in Machine Learning: Algorithms, Applications, and Open Issues

Estimating Transfer Entropy in Continuous Time Between Neural Spike Trains or Other Event-Based Data

Cosmological cross-correlations and nearest neighbour distributions

Fast and robust computation of coherent Lagrangian vortices on very large two-dimensional domains

The SMAI journal of computational mathematics

Predicting Spatio-temporal Time Series Using Dimension Reduced Local States


A Python library for audio data augmentation. Inspired by albumentations. Useful for machine learning.

mixup: Beyond Empirical Risk Minimization

SpecAugment: A Simple Data Augmentation Method for Automatic Speech Recognition

AudioCLIP: Extending CLIP to Image, Text and Audio

Balancing Discriminability and Transferability for Source-Free Domain Adaptation

NORESQA: A Framework for Speech Quality Assessment using Non-Matching References

Towards sound based testing of COVID-19 -- Summary of the first Diagnostics of COVID-19 using Acoustics (DiCOVA) Challenge

Effects of Data Augmentations on Speech Emotion Recognition

Audio Data Augmentation for Acoustic-to-Articulatory Speech Inversion

Fall Detection from Audios with Audio Transformers

Using Deep Learning with Large Aggregated Datasets for COVID-19
  Classification from Cough


Satellite image time series in R

Land use and cover maps for Mato Grosso State in Brazil from 2001 to 2017

Identifying Spatiotemporal Patterns in Land Use and Cover Samples from Satellite Image Time Series


Scikit-learn style model finetuning for NLP

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

RoBERTa: A Robustly Optimized BERT Pretraining Approach

Convolutional Neural Networks for Sentence Classification

Transfer Learning for Risk Classification of Social Media Posts: Model Evaluation Study


Lightweight, modular, and extensible library for functional programming.

Simplicitly: foundations and applications of implicit function types

Symposium on Principles of Programming Languages

Composable Models for Online Bayesian Analysis of Streaming Data

Functional probabilistic programming for scalable Bayesian modelling


Xv6 for RISC-V

Bento and the Art of Repeated Research


About moja global and How We Work


T-Pot - The All In One Honeypot Platform

A Comparative Analysis of Honeypots on Different Cloud Platforms

Honeypot Implementation in a Cloud Environment

An Analysis of Honeypots and their Impact as a Cyber Deception Tactic

URSID: Using formalism to Refine attack Scenarios for vulnerable
  Infrastructure Deployment


Julia package for Gaussian quadrature

Quantifying the Bayesian Evidence for a Planet in Radial Velocity Data

Fast computation of Gauss quadrature nodes and weights on the whole real line

Construction and implementation of asymptotic expansions for Laguerre-type orthogonal polynomials

Computationally efficient mechanism discovery for cell invasion with uncertainty quantification

Computing the matrix fractional power with the double exponential formula

Burgers' equation in the complex plane

Arbitrary-order asymptotic expansions of Gaussian quadrature rules with
  classical and generalised weight functions


Development repository for the CICE sea-ice model

Atmospheric sensitivity to marginal‐ice‐zone drag: Local and global responses

Quarterly journal of the Royal Meteorological Society


A Library for Advanced Deep Time Series Models.

TimesNet: Temporal 2D-Variation Modeling for General Time Series
  Analysis

One Fits All:Power General Time Series Analysis by Pretrained LM

Meta-Transformer: A Unified Framework for Multimodal Learning

Time-LLM: Time Series Forecasting by Reprogramming Large Language Models

iTransformer: Inverted Transformers Are Effective for Time Series
  Forecasting

ML-Bench: Large Language Models Leverage Open-source Libraries for
  Machine Learning Tasks

Full Scaling Automation for Sustainable Development of Green Data Centers

One Fits All: Universal Time Series Analysis by Pretrained LM and
  Specially Designed Adaptors

The Bigger the Better? Rethinking the Effective Model Scale in Long-term Time Series Forecasting


Accelerated Microstructure Imaging via Convex Optimization (AMICO) from diffusion MRI data

White matter microstructure across the adult lifespan: A mixed longitudinal and cross-sectional study using advanced diffusion models and brain-age prediction

Neurite Exchange Imaging (NEXI): A minimal model of diffusion in gray matter with inter-compartment water exchange

Persistent white matter changes in recovered COVID-19 patients at the 1-year follow-up

Disruption of neurite morphology parallels MS progression

Neurology® neuroimmunology & neuroinflammation

Tau-related white-matter alterations along spatially selective pathways

Resolving bundle-specific intra-axonal T2 values within a voxel using diffusion-relaxation tract-based estimation

VERDICT‐AMICO: Ultrafast fitting algorithm for non‐invasive prostate microstructure characterization

Estimation of Tissue Microstructure Using a Deep Network Inspired by a Sparse Reconstruction Framework

Brain Development From Newborn to Adolescence: Evaluation by Neurite Orientation Dispersion and Density Imaging

The Myelin‐Weighted Connectome in Parkinson's Disease

Movement disorders : official journal of the Movement Disorder Society


light NN client

Deep Sets

MLaaS4HEP: Machine Learning as a Service for HEP

C++ Code Generation for Fast Inference of Deep Learning Models in ROOT/TMVA

HL-LHC Computing Review: Common Tools and Community Software

Machine Learning as a Service for HEP


Automatically detect and generate missing assertions for Junit test cases (also known as test amplification)

Automatic test improvement with DSpot: a study with ten mature open-source projects

Developer-centric test amplification

Abstract 11244: Illness Perception and the Impact of a Definitive Diagnosis on Women with Ischemia Without Obstructive Coronary Artery Disease: A Qualitative Study

Can We Spot Energy Regressions using Developers Tests?


Graph-based alignment (Hierarchical Graph FM index)

Whole Genome Sequencing of the Giant Grouper (Epinephelus lanceolatus) and High-Throughput Screening of Putative Antimicrobial Peptide Genes

The transcriptional reprograming and functional identification of WRKY family members in pepper’s response to Phytophthora capsici infection

Vargas: heuristic-free alignment for assessing linear and graph read aligners

In silico tools for accurate HLA and KIR inference from clinical sequencing data empower immunogenetics on individual-patient and population scales

Differences in Leaf Morphology and Related Gene Expression between Diploid and Tetraploid Birch (Betula pendula)

International journal of molecular sciences

Genome-wide Interrogation of Protein-DNA Interactions in Mammalian Cells Using ChIPmentation

Whole-Genome Sequence of Entomortierella parvispora E1425, a Mucoromycotan Fungus Associated with Burkholderiaceae-Related Endosymbiotic Bacteria

Blastospores from Metarhizium anisopliae and Metarhizium rileyi Are Not Always as Virulent as Conidia Are towards Spodoptera frugiperda Caterpillars and Use Different Infection Mechanisms

Nanopore Sequencing and Hi-C Based De Novo Assembly of Trachidermus fasciatus Genome

Empirical study on software and process quality in bioinformatics tools


Gin provides a lightweight configuration framework for Python

Dopamine: A Research Framework for Deep Reinforcement Learning

Scaling Up Models and Data with  and

PyGlove: Symbolic Programming for Automated Machine Learning

Ariadne: PyTorch library for particle track reconstruction using deep learning

PROCEEDINGS OF THE 24TH INTERNATIONAL SCIENTIFIC CONFERENCE OF YOUNG SCIENTISTS AND SPECIALISTS (AYSS-2020)

Real-time Timbre Transfer and Sound Synthesis using DDSP

On the Importance of Step-wise Embeddings for Heterogeneous Clinical
  Time-Series

A comparison of reinforcement learning frameworks for software testing tasks


ASIC and FPGA miner in c for bitcoin

Diversification Across Mining Pools: Optimal Mining Strategies under PoW

Deep Differentiable Logic Gate Networks

Bitcoin Mining Decentralization via Cost Analysis

Implementation of an Efficient, Portable and Platform-Agnostic Cryptocurrency Mining Algorithm for Internet of Things Devices


Integrating the Best of TF into PyTorch, for Machine Learning, Natural Language Processing, and Text Generation.  This is part of the CASL project: http://casl-project.ai/

Texar: A Modularized, Versatile, and Extensible Toolkit for Text Generation

Multi-Rate VAE: Train Once, Get the Full Rate-Distortion Curve


Machine learning, statistics, and data mining for astronomy and astrophysics

Astronomy in the Big Data Era

Monte Carlo method for calculating oxygen abundances and their uncertainties from strong-line flux measurements

Precise radial velocities of giant stars IX. HD 59686 Ab: a massive circumstellar planet orbiting a giant star in a ~13.6 au eccentric binary system

VISION - Vienna Survey in Orion: II. Infrared extinction in Orion A


Package to call the NLopt nonlinear-optimization library from the Julia language

Quantitative analysis of tumour spheroid structure

Estimating Phosphorescent Emission Energies in IrIII Complexes Using Large‐Scale Quantum Computing Simulations**

Host-region parameters for an adjustable model for crustal earthquakes to facilitate the implementation of the backbone approach to building ground-motion logic trees in probabilistic seismic hazard analysis

Computationally efficient framework for diagnosing, understanding and predicting biphasic population growth

Geometric analysis enables biological insight from complex non-identifiable models using simple surrogates

Efficient inference and identifiability analysis for differential equation models with random parameters

Implementing measurement error models with mechanistic mathematical
  models in a likelihood-based framework for estimation, identifiability
  analysis, and prediction in the life sciences

Evolutionary optimization of the Verlet closure relation for the hard-sphere and square-well fluids

Pushing coarse-grained models beyond the continuum limit using equation learning

Improving robustness to noise of nonlinear parameter identification using control-based continuation


FOREST - Forecast and Observation Research and Evaluation Survey Tool


MinHash, LSH, LSH Forest, Weighted MinHash, HyperLogLog, HyperLogLog++, LSH Ensemble and HNSW

The Pile: An 800GB Dataset of Diverse Text for Language Modeling

RealToxicityPrompts: Evaluating Neural Toxic Degeneration in Language Models

SantaCoder: don't reach for the stars!

AutoBlock: A Hands-off Blocking Framework for Entity Matching

LargeEA: Aligning Entities for Large-scale Knowledge Graphs

In-Context Learning with Many Demonstration Examples

Topic modeling of public repositories at scale using names in source code.

A Data-Driven Supply-Side Approach for Measuring Cross-Border Internet Purchases

Journal of the Royal Statistical Society. Series A. Statistics in society/Journal of the Royal Statistical Society. Series A, Statistics in society

Koala: An Index for Quantifying Overlaps with Pre-training Corpora

Learning to Flip the Sentiment of Reviews from Non-Parallel Corpora

Empirical Methods in Natural Language Processing


Bioconductor facilities for parallel evaluation

Comprehensive analysis of long noncoding RNA expression in dorsal root ganglion reveals cell-type specificity and dysregulation after nerve injury

The Inflammatory Bowel Disease Transcriptome and Metatranscriptome Meta-Analysis (IBD TaMMA) framework

Egr2 and 3 control inflammation, but maintain homeostasis, of PD-1high memory phenotype CD4 T cells

Identifying Differentially Expressed Genes of Zero Inflated Single Cell RNA Sequencing Data Using Mixed Model Score Tests


A package to support RL research

Playing Atari with Deep Reinforcement Learning

Deep Reinforcement Learning with Double Q-learning

Dueling Network Architectures for Deep Reinforcement Learning

Prioritized Experience Replay

Rainbow: Combining Improvements in Deep Reinforcement Learning

A Distributional Perspective on Reinforcement Learning

Noisy Networks for Exploration

The Hanabi Challenge: A New Frontier for AI Research


Easy benchmarking of all publicly accessible implementations of convnets

Very Deep Convolutional Networks for Large-Scale Image Recognition

TensorFlow: A system for large-scale machine learning

OverFeat: Integrated Recognition, Localization and Detection using Convolutional Networks

Theano: A Python framework for fast computation of mathematical expressions

MXNet: A Flexible and Efficient Machine Learning Library for Heterogeneous Distributed Systems

cuDNN: Efficient Primitives for Deep Learning

Precomputed Real-Time Texture Synthesis with Markovian Generative Adversarial Networks

YodaNN: An Ultra-Low Power Convolutional Neural Network Accelerator Based on Binary Weights

Faster CNNs with Direct Sparse Convolutions and Guided Pruning

Origami: A 803-GOp/s/W Convolutional Network Accelerator

IEEE transactions on circuits and systems for video technology


Extensible, Efficient Quantum Algorithm Design for Humans.

Parameterized quantum circuits as machine learning models

Variational quantum eigensolver with fewer qubits

Solving quantum statistical mechanics with variational autoregressive networks and quantum circuits

Tensor Network Circuit Simulation at Exascale

Secure quantum computing for healthcare sector: A short analysis

QAOA.jl: Toolkit for the Quantum and Mean-Field Approximate Optimization Algorithms


Federated Learning Simulator (FLSim) is a flexible, standalone core library that simulates FL settings with a minimal, easy-to-use API. FLSim is domain-agnostic and accommodates many use cases such as vision and text.

Where to Begin? On the Impact of Pre-Training and Initialization in
  Federated Learning

Towards Fair Federated Recommendation Learning: Characterizing the Inter-Dependence of System and Data Heterogeneity

CANIFE: Crafting Canaries for Empirical Privacy Measurement in Federated
  Learning

Fingerprint Attack: Client De-Anonymization in Federated Learning


A Python library for amortized Bayesian workflows using generative neural networks.

BayesFlow: Learning complex stochastic models with invertible neural
  networks

Amortized Bayesian model comparison with evidential deep learning

Detecting Model Misspecification in Amortized Bayesian Inference with
  Neural Networks

JANA: Jointly Amortized Neural Approximation of Complex Bayesian Models

A Bayesian brain model of adaptive behavior: an application to the Wisconsin Card Sorting Task

A General Integrative Neurocognitive Modeling Framework to Jointly Describe EEG and Decision-making on Single Trials

Computational brain & behavior/Computational Brain & Behavior

BayesFlow: Amortized Bayesian Workflows With Neural Networks

Neural superstatistics for Bayesian estimation of dynamic cognitive models


H2O is an Open Source, Distributed, Fast & Scalable Machine Learning Platform: Deep Learning, Gradient Boosting (GBM) & XGBoost, Random Forest, Generalized Linear Modeling (GLM with Elastic Net), K-Means, PCA, Generalized Additive Models (GAM), RuleFit, Support Vector Machine (SVM), Stacked Ensembles, Automatic Machine Learning (AutoML), etc.

Benchmark and Survey of Automated Machine Learning Frameworks

Towards Automated Machine Learning: Evaluation and Comparison of AutoML Approaches and Tools

International Conference on Tools with Artificial Intelligence

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

Functional Dissection of the Enhancer Repertoire in Human Embryonic Stem Cells

LncFinder: an integrated platform for long non-coding RNA identification utilizing sequence intrinsic composition, structural information and physicochemical property

Systematic allelic analysis defines the interplay of key pathways in X chromosome inactivation

Biological Brain Age Prediction Using Cortical Thickness Data: A Large Scale Cohort Study

Predicting Fine Particulate Matter (PM2.5) in the Greater London Area: An Ensemble Approach using Machine Learning Methods

Progressive water deficits during multiyear droughts in basins with long hydrological memory in Chile

dalex: Responsible Machine Learning with Interactive Explainability and Fairness in Python


Genome-scale protein function classification

The InterPro protein families and domains database: 20 years on

Inferring microbiota functions from taxonomic genes: a review

The Chloroplast Genome of Utricularia reniformis Sheds Light on the Evolution of the ndh Gene Complex of Terrestrial Carnivorous Plants from the Lentibulariaceae Family

The genome of Nautilus pompilius illuminates eye evolution and biomineralization

Enterococcus faecium Regulates Honey Bee Developmental Genes

Genomic variation reveals demographic history and biological adaptation of the ancient relictual, lotus (Nelumbo Adans.)

Characterization of Growth Morphology and Pathology, and Draft Genome Sequencing of Botrytis fabae, the Causal Organism of Chocolate Spot of Faba Bean (Vicia faba L.)

Metagenomics Shines Light on the Evolution of "Sunscreen" Pigment Metabolism in the Teloschistales (Lichen-Forming Ascomycota).

High-resolution and Deep Phylogenetic Reconstruction of Ancestral States from Large Transcriptomic Data Sets

De Novo Transcriptome Assembly and EST-SSR Marker Development and Application in Chrysosplenium macrophyllum


Pre facet calibration pipeline

The LOFAR Two-metre Sky Survey (LoTSS) III. First Data Release: optical/IR identifications and value-added catalogue

The LOFAR Two-metre Sky Survey

The LOFAR Two-meter Sky Survey: Deep Fields Data Release 1

Systematic effects in LOFAR data: A unified calibration strategy

A radio ridge connecting two galaxy clusters in a filament of the cosmic web

Gentle reenergization of electrons in merging galaxy clusters

LOFAR discovery of an ultra-steep radio halo and giant head–tail radio galaxy in Abell 1132

Monthly Notices of the Royal Astronomical Society

A LOFAR study of non-merging massive galaxy clusters

The intergalactic magnetic field probed by a giant radio galaxy

The low-frequency radio eclipses of the black widow pulsar J1810+1744


Graph Neural Networks with Keras and Tensorflow 2.

Graph Neural Networks in TensorFlow and Keras with Spektral

Hierarchical Representation Learning in Graph Neural Networks With Node Decimation Pooling

IEEE transactions on neural networks and learning systems

Efficient Graph Deep Learning in TensorFlow with tf_geometric

Graph Neural Networks for Particle Tracking and Reconstruction

Graph Neural Networks: Methods, Applications, and Opportunities

TransMUSE: Transferable Traffic Prediction in MUlti-Service EdgeNetworks


A machine learning library for spiking neural networks. Supports training with both torch and jax pipelines, and deployment to neuromorphic hardware.

Sub-mW Neuromorphic SNN audio processing applications with Rockpool and
  Xylo

mlGeNN: accelerating SNN inference using GPU-enabled neural networks

Training and Deploying Spiking NN Applications to the Mixed-Signal
  Neuromorphic Chip Dynap-SE2 with Rockpool


moDel Agnostic Language for Exploration and eXplanation

One Explanation Does Not Fit All: A Toolkit and Taxonomy of AI Explainability Techniques

DALEX: explainers for complex predictive models

Explainable AI Methods - A Brief Overview

Shedding Light on Black Box Machine Learning Algorithms: Development of an Axiomatic Framework to Assess the Quality of Methods that Explain Individual Predictions

Massive Monte Carlo simulations-guided interpretable learning of two-dimensional Curie temperature


Python-based Astronomical image reprojection :milky_way: - maintainer @astrofrog

SuperBoRG: Search for the Brightest of Reionizing Galaxies and Quasars in HST Parallel Imaging Data*

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

Cosmic-CoNN: A Cosmic-Ray Detection Deep-learning Framework, Data Set, and Toolkit

Evolution of Nonparametric Morphology of Galaxies in the JWST CEERS Field at z ≃ 0.8–3.0

Spatially resolved mass-metallicity relation at z~0.26 from the
  MUSE-Wide Survey


A single molecule sequence assembler for genomes large and small.

Canu: scalable and accurate long-read assembly via adaptive k-mer weighting and repeat separation

Fast and accurate de novo genome assembly from long uncorrected reads

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

Oxford Nanopore MinION Sequencing and Genome Assembly

基因组蛋白质组与生物信息学报

Nanopore sequencing and the Shasta toolkit enable efficient de novo assembly of eleven human genomes

Hybrid assembly of the large and highly repetitive genome of Aegilops tauschii, a progenitor of bread wheat, with the mega-reads algorithm

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

Research in Computational Molecular Biology

The Indian cobra reference genome and transcriptome enables comprehensive identification of venom toxins

Prevotella copri increases fat accumulation in pigs fed with formula diets

Error correction enables use of Oxford Nanopore technology for reference-free transcriptome analysis


Lightweight controller library for JavaScript.

3D-GNOME: an integrated web service for structural modeling of the 3D genome

An EPR Strategy for Bio-responsive Fluorescence Guided Surgery with Simulation of the Benefit for Imaging

Interactive 3D Visualization for Theoretical Virtual Observatories

Modern Scientific Visualizations on the Web

QMwebJS—An Open Source Software Tool to Visualize and Share Time-Evolving Three-Dimensional Wavefunctions


Jupyter-friendly Python interface for C++ MINUIT2

The Completed SDSS-IV extended Baryon Oscillation Spectroscopic Survey:
  Baryon acoustic oscillations with Lyman-α forests

Spectral properties of 441 radio pulsars

The Completed SDSS-IV extended Baryon Oscillation Spectroscopic Survey: measurement of the BAO and growth rate of structure of the emission line galaxy sample from the anisotropic power spectrum between redshift 0.6 and 1.1

A Triple AGN in a Mid-infrared Selected Late-stage Galaxy Merger

A New View on Auger Data and Cosmogenic Neutrinos in Light of Different Nuclear Disintegration and Air-shower Models

The completed SDSS-IV extended baryon oscillation spectroscopic survey: growth rate of structure measurement from anisotropic clustering analysis in configuration space between redshift 0.6 and 1.1 for the emission-line galaxy sample

Interacting radiation after Planck and its implications for the Hubble tension

Journal of Cosmology and Astroparticle Physics

Is cosmic acceleration proven by local cosmological probes?

Strange molecular partners of the Z(c)(3900) and Z(c)(4020)

The on-orbit calibration of DArk Matter Particle Explorer


Dutch Atmospheric Large-Eddy Simulation model

Response of Extreme Precipitating Cell Structures to Atmospheric Warming

Journal of geophysical research. Atmospheres : JGR

The diurnal stratocumulus-to-cumulus transition over land in southern West Africa

Non-precipitating shallow cumulus convection is intrinsically unstable
  to length-scale growth

Why Does Fog Deepen? An Analytical Perspective

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

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

Cloud Botany: Shallow Cumulus Clouds in an Ensemble of Idealized Large‐Domain Large‐Eddy Simulations of the Trades

Journal of advances in modeling earth systems

Aerosol-cloud-turbulence interactions in well-coupled Arctic boundary layers over open water


ESA CCI Toolbox (Cate)


Implementations of recent research prototypes/demonstrations using MONAI.

UNETR: Transformers for 3D Medical Image Segmentation

Swin UNETR: Swin Transformers for Semantic Segmentation of Brain Tumors in MRI Images

Self-Supervised Pre-Training of Swin Transformers for 3D Medical Image Analysis

UNetFormer: A Unified Vision Transformer Model and Pre-Training
  Framework for 3D Medical Image Segmentation

Attention-based CT scan interpolation for lesion segmentation of colorectal liver metastases

Medical Imaging 2023: Biomedical Applications in Molecular, Structural, and Functional Imaging

SwinUNETR-V2: Stronger Swin Transformers with Stagewise Convolutions for 3D Medical Image Segmentation

MEDICAL IMAGE COMPUTING AND COMPUTER ASSISTED INTERVENTION, MICCAI 2023, PT IV


The mission of Project Drawdown is to help the world reach “Drawdown”— the point in the future when levels of greenhouse gases in the atmosphere stop climbing and start to steadily decline, thereby stopping catastrophic climate change — as quickly, safely, and equitably as possible.


Noto Emoji fonts

Im2Vec: Synthesizing Vector Graphics without Vector Supervision

ExtrudeNet: Unsupervised Inverse Sketch-and-Extrude for Shape Parsing

Variational Neural Cellular Automata

Neural Cellular Automata Manifold


rllab is a framework for developing and evaluating reinforcement learning algorithms, fully compatible with OpenAI Gym.

Benchmarking Deep Reinforcement Learning for Continuous Control

Deep Reinforcement Learning: An Overview

Parameter Space Noise for Exploration

Reproducibility of Benchmarked Deep Reinforcement Learning Tasks for Continuous Control

Algorithmic Framework for Model-based Deep Reinforcement Learning with Theoretical Guarantees

Stein Variational Policy Gradient

Deep Reinforcement Learning

rlpyt: A Research Code Base for Deep Reinforcement Learning in PyTorch

An Improved Analysis of (Variance-Reduced) Policy Gradient and Natural
  Policy Gradient Methods

Policy Optimization as Wasserstein Gradient Flows


FOQUS: Framework for Optimization and Quantification of Uncertainty and Surrogates


Experimental implementation of Cubical Type Theory

Cubical Type Theory: a constructive interpretation of the univalence axiom

On Higher Inductive Types in Cubical Type Theory

Guarded Cubical Type Theory

Homotopy Type Theory in Lean

The RedPRL Proof Assistant (Invited Paper)

On the Formalization of Higher Inductive Types and Synthetic Homotopy
  Theory

Bicategories in Univalent Foundations

Cubical sets and the topological topos

Cubical methods in homotopy type theory and univalent foundations

Mathematical Structures in Computer Science


Eureka! is a data reduction and analysis pipeline intended for time-series observations with JWST.

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

A reflective, metal-rich atmosphere for GJ 1214b from its JWST phase curve

High atmospheric metal enrichment for a Saturn-mass planet

Spectroscopic Time Series Performance of the Mid-infrared Instrument on the JWST


Large scale and asynchronous Hyperparameter and Architecture Optimization at your fingertips.

Model-based Asynchronous Hyperparameter and Neural Architecture Search

PASHA: Efficient HPO and NAS with Progressive Resource Allocation

Optimizing Hyperparameters with Conformal Quantile Regression

MALIBO: Meta-learning for Likelihood-free Bayesian Optimization


A Python interface for https://github.com/fplll/fplll

Sparse Recovery With Integrality Constraints

Déjà Vu: Side-Channel Analysis of Mozilla's NSS

Conference on Computer and Communications Security

HyperDegrade: From GHz to MHz Effective CPU Frequencies

Improved attacks on knapsack problem with their variants and a knapsack type ID-scheme

Advances in mathematics of communications


Brain-inspired Cognitive Intelligence Engine (BrainCog) is a brain-inspired spiking neural network based platform for Brain-inspired Artificial Intelligence and simulating brains at multiple scales. The long term goal of BrainCog is to provide a comprehensive theory and system to decode the mechanisms and principles of human intelligence and its evolution, and develop artificial brains for brain-inspired conscious living AI in future Human-AI symbiotic Society.

BrainCog: A spiking neural network based, brain-inspired cognitive intelligence engine for brain-inspired AI and brain simulation

Solving the Spike Feature Information Vanishing Problem in Spiking Deep
  Q Network with Potential Based Normalization

Multi-compartment Neuron and Population Encoding improved Spiking Neural
  Network for Deep Distributional Reinforcement Learning

Enhancing Efficient Continual Learning with Dynamic Structure Development of Spiking Neural Networks

A brain-inspired intention prediction model and its applications to humanoid robot

Multi-scale Evolutionary Neural Architecture Search for Deep Spiking
  Neural Networks

DPSNN: A Differentially Private Spiking Neural Network with Temporal
  Enhanced Pooling


Time Series Benchmark Suite, a tool for comparing and evaluating databases for time series data

TimeCrypt: Encrypted Data Stream Processing at Scale with Cryptographic Access Control

Using Microbenchmark Suites to Detect Application Performance Changes


Generalized Out-of-Distribution Detection: A Survey

ViM: Out-Of-Distribution with Virtual-logit Matching

OpenOOD: Benchmarking Generalized Out-of-Distribution Detection

OpenOOD v1.5: Enhanced Benchmark for Out-of-Distribution Detection

Full-Spectrum Out-of-Distribution Detection

Diffusion Denoising Process for Perceptron Bias in Out-of-distribution
  Detection

DiffGuard: Semantic Mismatch-Guided Out-of-Distribution Detection using Pre-trained Diffusion Models

Nearest Neighbor Guidance for Out-of-Distribution Detection

Diffusion Denoised Smoothing for Certified and Adversarial Robust
  Out-Of-Distribution Detection

Hybrid Energy Based Model in the Feature Space for Out-of-Distribution Detection


Constraints on the onset duration of the Paleocene–Eocene Thermal Maximum

Massive and rapid predominantly volcanic CO2 emission during the end-Permian mass extinction

Zenodo (CERN European Organization for Nuclear Research)

EcoGEnIE 1.0: plankton ecology in the cGEnIE Earth system model

Unravelling the sources of carbon emissions at the onset of Oceanic Anoxic Event (OAE) 1a

Data-constrained assessment of ocean circulation changes since the middle Miocene in an Earth system model

Variable C∕P composition of organic production and its effect on ocean carbon storage in glacial-like model simulations

Resolving ecological feedbacks on the ocean carbon sink in Earth system models

Inclusion of a suite of weathering tracers in the cGENIE Earth system model – muffin release v.0.9.23

Anoxic iron and sulphur cycling in the cGENIE.muffin Earthsystem model (v0.9.16)


Driven similarity renormalization group: Third-order multireference perturbation theory

Analytic Energy Gradients for the Driven Similarity Renormalization Group Multireference Second-Order Perturbation Theory.

Analytical Gradient Theory for Spin-Free State-Averaged Second-Order Driven Similarity Renormalization Group Perturbation Theory (SA-DSRG-MRPT2) and Its Applications for Conical Intersection Optimizations

Automatic derivation of many-body theories based on general Fermi vacua.


The consequences of climate change, especially the dry and hot summers, are putting a strain on Berlin's ecosystem. Our urban trees are drying out and suffering long-term damage. Gieß den Kiez is made to enable coordinated citizen participation in the irrigation of urban trees.


Package for dynamical modeling of power grids

PowerDynamics.jl—An experimentally validated open-source package for the dynamical analysis of power grids


A pipeflow calculation tool that complements pandapower in the simulation of multi energy grids


Generic Java genotype reader / writer, QTL mapping software, Strand alignment tool

Large-scale cis- and trans-eQTL analyses identify thousands of genetic loci and polygenic scores that regulate blood gene expression

Improving the diagnostic yield of exome-sequencing, by predicting gene-phenotype associations using large-scale gene expression analysis

Pathogenic implications for autoimmune mechanisms derived by comparative eQTL analysis of CD4+ versus CD8+ T cells

Brain expression quantitative trait locus and network analysis reveals downstream effects and putative drivers for brain-related diseases

Deconvolution of bulk blood eQTL effects into immune cell subpopulations

Inter-Tissue Gene Co-Expression Networks between Metabolically Healthy and Unhealthy Obese Individuals

Mendelian Randomization Analysis Reveals a Causal Influence of Circulating Sclerostin Levels on Bone Mineral Density and Fractures

Common Germline Risk Variants Impact Somatic Alterations and Clinical Features across Cancers

Idéfix: identifying accidental sample mix-ups in biobanks using polygenic scores


The Tensor Algebra Compiler (taco) computes sparse tensor expressions on CPUs and GPUs

Format Abstraction for Sparse Tensor Algebra Compilers

Proceedings of the ACM on programming languages

A sparse iteration space transformation framework for sparse tensor algebra

Automatic generation of efficient sparse tensor format conversion routines

Programming Language Design and Implementation

Polyhedral Specification and Code Generation of Sparse Tensor Contraction with Co-iteration

Compiling Structured Tensor Algebra


TLSH (C++ version)

Bytewise Approximate Matching: The Good, The Bad, and The Unknown

The journal of digital forensics, security and law

JavaScript Malware Detection Using Locality Sensitive Hashing

Carl-Hauser - Open Source Image Matching Algorithms Benchmarking Framework.


StarCraft II Learning Environment

Deep Reinforcement Learning: An Overview

StarCraft II: A New Challenge for Reinforcement Learning

SCC: an efficient deep reinforcement learning agent mastering the game of StarCraft II

Conditionally Elicitable Dynamic Risk Measures for Deep Reinforcement Learning

Overview of Software Agent Platforms Available in 2023

Iterated Reasoning with Mutual Information in Cooperative and Byzantine
  Decentralized Teaming

REPAINT: Knowledge Transfer in Deep Reinforcement Learning

MSC: A Dataset for Macro-Management in StarCraft II

Large Language Models Play StarCraft II: Benchmarks and A Chain of
  Summarization Approach

Causal Reinforcement Learning: A Survey


Processing pipelines for the HCP

A multi-modal parcellation of human cerebral cortex

Image processing and Quality Control for the first 10,000 brain imaging datasets from UK Biobank

Quantitative mapping of the per‐axon diffusion coefficients in brain white matter

Effects of a Brain-Computer Interface With Virtual Reality (VR) Neurofeedback: A Pilot Study in Chronic Stroke Patients

Waves of Maturation and Senescence in Micro-structural MRI Markers of Human Cortical Myelination over the Lifespan

2015 Brainhack Proceedings

Ketamine, but Not the NMDAR Antagonist Lanicemine, Increases Prefrontal Global Connectivity in Depressed Patients

A whole-cortex probabilistic diffusion tractography connectome

Computational Modeling of Electroencephalography and Functional Magnetic Resonance Imaging Paradigms Indicates a Consistent Loss of Pyramidal Cell Synaptic Gain in Schizophrenia

Open and reproducible neuroimaging: From study inception to publication


Library for HERA data reduction, including redundant calibration, absolute calibration, and LST-binning.

Mitigating Internal Instrument Coupling I: Temporal and Spectral Modeling

Improved Constraints on the 21 cm EoR Power Spectrum and the X-Ray Heating of the IGM with HERA Phase I Observations

Absolute Calibration Strategies for the Hydrogen Epoch of Reionization Array and Their Impact on the 21 cm Power Spectrum

Redundant-baseline calibration of the hydrogen epoch of reionization array

Monthly notices of the Royal Astronomical Society

Patterns of primary beam non-redundancy in close-packed 21 cm array observations

Array element coupling in radio interferometry I: a semi-analytic approach

On the use of temporal filtering for mitigating galactic synchrotron
  calibration bias in 21 cm reionization observations


The core library of differential privacy algorithms powering the OpenDP Project.

Precision-based attacks and interval refining: how to break, then fix,
  differential privacy on finite computers

Widespread Underestimation of Sensitivity in Differentially Private Libraries and How to Fix It

Lessons Learned: Surveying the Practicality of Differential Privacy in the Industry

Differentially Private Sparse Vectors with Low Error, Optimal Space, and Fast Access

The journal of privacy and confidentiality

Sotto Voce: Federated Speech Recognition with Differential Privacy
  Guarantees

Diverse Community Data for Benchmarking Data Privacy Algorithms


Deciding the Consistency of Non-Linear Real Arithmetic Constraints with a Conflict Driven Search Using Cylindrical Algebraic Coverings

The Journal of logical and algebraic methods in programming/Journal of logical and algebraic methods in programming

Verified Quadratic Virtual Substitution for Real Arithmetic.

Local Search For SMT On Linear and Multilinear Real Arithmetic


SwissArmyTransformer is a flexible and powerful library to develop your own Transformer variants.

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

Prefix-Tuning: Optimizing Continuous Prompts for Generation

GPT Understands, Too

GLM: General Language Model Pretraining with Autoregressive Blank Infilling

LMTuner: An user-friendly and highly-integrable Training Framework for
  fine-tuning Large Language Models


General purpose algebraic metaprogramming and symbolic computation library for the Julia programming language: E-Graphs & equality saturation, term rewriting and more.

egg: Fast and Extensible Equality Saturation

High-performance symbolic-numerics via multiple dispatch

Metatheory.jl: Fast and Elegant Algebraic Computation in Julia with Extensible Equality Saturation

Automated Code Optimization with E-Graphs


A multi-scale, python-based library for the modelling of solar cells and semiconductor materials


A collection of robotics simulation environments for reinforcement learning

Causal Reinforcement Learning: A Survey

Learning to Reach Goals via Diffusion


A Fast Implementation of Random Forests

The revival of the Gini importance?

Global terrestrial carbon fluxes of 1999–2019 estimated by upscaling eddy covariance data with a random forest

Machine Learning and Deep Learning -- A review for Ecologists

Synthesis of L-Band SAR and Forest Heights Derived from TanDEM-X DEM and 3 Digital Terrain Models for Biomass Mapping

Application of Machine Learning Classification to Improve the Performance of Vancomycin Therapeutic Drug Monitoring

Discrete-time survival forests with Hellinger distance decision trees

Review on Real Time Background Extraction: Models, Applications, Environments, Challenges and Evaluation Approaches

International journal of online and biomedical engineering

Analysis and Prediction of Vehicle Kilometers Traveled: A Case Study in Spain

International journal of environmental research and public health

Identifying Recent Cholera Infections Using a Multiplex Bead Serological Assay


LOFAR solutions tool

Systematic effects in LOFAR data: A unified calibration strategy

Monthly Notices of the Royal Astronomical Society - LOFAR/H-ATLAS: A deep low-frequency survey of the Herschel-ATLAS North Galactic Pole field

The effect of the ionosphere on ultra-low-frequency radio-interferometric observations

LOFAR VLBI Studies at 55 MHz of 4C 43.15, a z=2.4 Radio Galaxy

LOFAR detection of a low-power radio halo in the galaxy cluster Abell 990

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