NGLess • Rank 13.9 • Science 75%

NGLess: NGS with less work

patsy • Rank 29.9 • Science 59%

Describing statistical models in Python using symbolic formulas

stepcount • Rank 11.9 • Science 77%

Improved Step Counting via Foundation Models for Wrist-Worn Accelerometers

pyaca • Rank 11.9 • Science 77%

Python scripts accompanying the book "An Introduction to Audio Content Analysis" (www.AudioContentAnalysis.org)

instamatic • Rank 11.9 • Science 77%

Python program for automated electron diffraction data collection

exchange • Rank 3.9 • Science 85%

Description of the WHP (CCHDO) Exchange Format for CTD/Hydrographic Data

road2citygml3 • Rank 3.8 • Science 85%

Guideline for modelling roads and the streetspace within semantic 3D city models using the international OGC standard City Geography Markup Language (CityGML) version 3.0.

GenX • Rank 11.8 • Science 77%

GenX: a configurable power system capacity expansion model for studying low-carbon energy futures. More details at : https://genx.mit.edu

gufe • Rank 11.8 • Science 77%

core data models of the Open Free Energy ecosystem

PIVC — Peer-reviewed • Rank 1.8 • Science 87%

PIVC: A C/C++ Program for Particle Image Velocimetry Vector Computation - Published in JOSS (2023)

tbss • Rank 3.8 • Science 85%

Tract based spatial statistics using ANTs and FSL

pytorch-lightning • Rank 34.8 • Science 54%

Pretrain, finetune ANY AI model of ANY size on multiple GPUs, TPUs with zero code changes.

ewatercycle • Rank 11.8 • Science 77%

Python package for running hydrological models

WatchMe — Peer-reviewed • Rank 11.8 • Science 77%

WatchMe: Software for Reproducible Monitoring and Data Collection - Published in JOSS (2019)

brian2cuda • Rank 11.8 • Science 77%

A brian2 extension to simulate spiking neural networks on GPUs

pyschism • Rank 11.8 • Science 77%

Python interface for handling the SCHISM model.

ARCHModels • Rank 11.7 • Science 77%

A Julia package for estimating ARMA-GARCH models.

Gviz • Rank 21.7 • Science 67%

This is the Gviz development repository. Gviz plots data and annotation information along genomic coordinates.

cvnn • Rank 11.7 • Science 77%

Library to help implement a complex-valued neural network (cvnn) using tensorflow as back-end

chemplot • Rank 11.7 • Science 77%

A python package for chemical space visualization.

pygwalker • Rank 24.6 • Science 64%

PyGWalker: Turn your dataframe into an interactive UI for visual analysis

HSL • Rank 11.6 • Science 77%

Julia interface to the HSL Mathematical Software Library

alchemiscale • Rank 11.6 • Science 77%

a high-throughput alchemical free energy execution system for use with HPC, cloud, bare metal, and Folding@Home

Eclipse Golo • Rank 1.6 • Science 87%

Eclipse Golo - Published in JOSS (2016)

Mosquitto: server and client implementation of the MQTT protocol • Rank 1.6 • Science 87%

Mosquitto: server and client implementation of the MQTT protocol - Published in JOSS (2017)

legend-daq2lh5 • Rank 11.6 • Science 77%

Convert digitizer data to LEGEND HDF5

ants • Rank 11.6 • Science 77%

Advanced Normalization Tools (ANTs)

fenicsprecice • Rank 11.6 • Science 77%

preCICE-adapter for the open source computing platform FEniCS

joblib • Rank 34.6 • Science 54%

Computing with Python functions.

pathway-mapper • Rank 13.6 • Science 75%

PathwayMapper: An interactive and collaborative graphical curation tool for cancer pathways

pdataviewer • Rank 3.6 • Science 85%

Parkinsons Disease cohort landscape visualization

weldx • Rank 11.6 • Science 77%

The welding data exchange format

dexp • Rank 11.5 • Science 77%

Dataset EXploration & Processing

datalad-xnat • Rank 11.5 • Science 77%

Track XNAT projects with DataLad

sourcespec • Rank 11.5 • Science 77%

Earthquake source parameters from P- and S-wave displacement spectra

iris • Rank 11.5 • Science 77%

A powerful, format-agnostic, and community-driven Python package for analysing and visualising Earth science data

OptimizationProblems • Rank 11.5 • Science 77%

Optimization Problems for Julia

pedpy • Rank 11.5 • Science 77%

Analysis of pedestrian dynamics based on trajectory files.

r.pops.spread • Rank 3.5 • Science 85%

r.pops.spread - PoPS model implemented as a GRASS GIS module

skforecast • Rank 21.5 • Science 67%

Time series forecasting with machine learning models

SnpArrays • Rank 11.5 • Science 77%

Compressed storage for SNP data

pyscope • Rank 11.4 • Science 77%

pyscope is a pure-Python package for control of small robotic telescopes.

nushell • Rank 34.4 • Science 54%

A new type of shell

gpm-api • Rank 11.4 • Science 77%

A python package to download and analyze the Global Precipitation Measurement Mission (GPM) data archive

@citation-js/cli • Rank 21.4 • Science 67%

Core functionality of Citation.js, as well as the original plugins (CSL, BibTeX, RIS, DOI, Wikidata, and BibJSON)

faker • Rank 34.4 • Science 54%

Faker is a Python package that generates fake data for you.

mici • Rank 11.4 • Science 77%

Manifold Markov chain Monte Carlo methods in Python

librosa • Rank 29.4 • Science 59%

Python library for audio and music analysis

bambi • Rank 21.4 • Science 67%

BAyesian Model-Building Interface (Bambi) in Python.

plastics-prototype • Rank 3.4 • Science 85%

Decision support tool for plastics policy.

qub-sherlock • Rank 11.4 • Science 77%

The QUB Transient Classifier

chart-studio • Rank 34.4 • Science 54%

The interactive graphing library for Python :sparkles:

AutoFunc — Peer-reviewed • Rank 1.4 • Science 87%

AutoFunc: A Python package for automating and verifying functional modeling - Published in JOSS (2021)

ParallelKDE.jl: A Package for Highly Parallel Kernel Density Estimation • Rank 1.4 • Science 87%

ParallelKDE.jl: A Package for Highly Parallel Kernel Density Estimation - Published in JOSS (2026)

KeemenaPreprocessing.jl: Unicode-Robust Cleaning, Multi-Level Tokenisation & Streaming Offset Bundling for Julia NLP • Rank 1.4 • Science 87%

KeemenaPreprocessing.jl: Unicode-Robust Cleaning, Multi-Level Tokenisation & Streaming Offset Bundling for Julia NLP - Published in JOSS (2026)

colpali-engine • Rank 21.4 • Science 67%

The code used to train and run inference with the ColVision models, e.g. ColPali, ColQwen2, and ColSmol.

astrodb_utils • Rank 11.4 • Science 77%

radionets • Rank 11.3 • Science 77%

Imaging radio interferometric data with Neural Networks.

terragpu • Rank 3.3 • Science 85%

Python library to process and classify remote sensing imagery by means of GPUs and ML.

acropolis-edge • Rank 3.3 • Science 85%

glass • Rank 11.3 • Science 77%

Generator for Large Scale Structure

org.pytorch:torchvision_ops • Rank 34.3 • Science 54%

Datasets, Transforms and Models specific to Computer Vision

pyerrors • Rank 11.3 • Science 77%

Error propagation and statistical analysis for Monte Carlo simulations in lattice QCD and statistical mechanics using autograd.

SolverCore • Rank 11.3 • Science 77%

sktime • Rank 29.3 • Science 59%

A unified framework for machine learning with time series

cytoscape-node-editing • Rank 13.3 • Science 75%

A Cytoscape.js extension to provide grapples to resize nodes

r-ecology-lesson • Rank 11.2 • Science 77%

Data Analysis and Visualization in R for Ecologists

simoptlib • Rank 11.2 • Science 77%

A testbed of simulation-optimization problems and solvers

vitessce • Rank 21.2 • Science 67%

Vitessce is a visual integration tool for exploration of spatial single-cell experiments.

dorotos • Rank 3.2 • Science 85%

Tooling Suite for Containerized ROS Applications

jurassic • Rank 3.2 • Science 85%

The Juelich Rapid Spectral Simulation Code (JURASSIC) is a fast infrared radiative transfer model for the analysis of atmospheric remote sensing measurements.

replay-trajectory-classification • Rank 11.2 • Science 77%

State space models for decoding hippocampal trajectories and determining their type using sorted or clusterless data

ml-fcnnls • Rank 11.2 • Science 77%

Fast Combinatorial Non-negative Least Squares

examples • Rank 11.1 • Science 77%

A collection of TLA⁺ specifications of varying complexities.

konrad • Rank 11.1 • Science 77%

Implementation of a radiative-convective equilibrium model.

pinocchio • Rank 24.1 • Science 64%

A fast and flexible implementation of Rigid Body Dynamics algorithms and their analytical derivatives

brkraw • Rank 11.1 • Science 77%

BrkRaw: A comprehensive tool to access raw Bruker Biospin MRI data

Mangal.jl and EcologicalNetworks.jl: Two complementary packages for analyzing ecological networks in Julia • Rank 1.1 • Science 87%

Mangal.jl and EcologicalNetworks.jl: Two complementary packages for analyzing ecological networks in Julia - Published in JOSS (2021)

Optlang: An algebraic modeling language for mathematical optimization • Rank 1.1 • Science 87%

Optlang: An algebraic modeling language for mathematical optimization - Published in JOSS (2017)

tantivy • Rank 34.1 • Science 54%

Tantivy is a full-text search engine library inspired by Apache Lucene and written in Rust

awesome-dataset-distillation • Rank 11.1 • Science 77%

A curated list of awesome papers on dataset distillation and related applications.

IncrementalInference • Rank 11.1 • Science 77%

Clique recycling non-Gaussian (multi-modal) factor graph solver; also see Caesar.jl.

cubids • Rank 11.0 • Science 77%

Curation of BIDS (CuBIDS): A sanity-preserving software package for processing BIDS datasets.

pyrcs • Rank 11.0 • Science 77%

PyRCS: An open-source tool for collecting railway codes used in different UK rail industry systems

OptimalControl • Rank 11.0 • Science 77%

Model and solve optimal control problems in Julia, both on CPU and GPU.

prime • Rank 3.0 • Science 85%

A complete installer for PRIME

synopsis • Rank 3.0 • Science 85%

Science Yield improvemeNt via Onboard Prioritization and Summary of Information System (SYNOPSIS)

binchicken • Rank 11.0 • Science 77%

Bin Chicken - recovery of low abundance and taxonomically targeted metagenome assembled genomes (MAGs) through strategic coassembly

gravity-toolkit • Rank 11.0 • Science 77%

Python tools for working time-variable gravity fields

lightly • Rank 24.0 • Science 64%

A python library for self-supervised learning on images.

fundamentals • Rank 10.9 • Science 77%

Some project setup tools including logging, settings and database connections

spectre • Rank 10.9 • Science 77%

SpECTRE is a code for multi-scale, multi-physics problems in astrophysics and gravitational physics.

alibi • Rank 20.9 • Science 67%

Algorithms for explaining machine learning models

oolong — Peer-reviewed • Rank 10.9 • Science 77%

oolong: An R package for validating automated content analysis tools - Published in JOSS (2020)

simulated-bifurcation • Rank 10.9 • Science 77%

Python CPU/GPU implementation of the Simulated Bifurcation (SB) algorithm to solve quadratic optimization problems (QUBO, Ising, TSP, optimal asset allocations for a portfolio, etc.).

permamodel • Rank 10.9 • Science 77%

Permafrost models with a Basic Model Interface

pyhdx • Rank 10.9 • Science 77%

Derive ΔG for single residues from HDX-MS data

labscript-suite • Rank 10.8 • Science 77%

Metapackage for the 𝘭𝘢𝘣𝘴𝘤𝘳𝘪𝘱𝘵 𝘴𝘶𝘪𝘵𝘦 experiment control and automation system

aslprep • Rank 10.8 • Science 77%

Preprocessing of arterial spin labeling (ASL) data

NLPModelsModifiers • Rank 10.8 • Science 77%