plantcv • Rank 18.9 • Science 49%

Plant phenotyping with image analysis

zntrack • Rank 13.9 • Science 54%

Create, visualize, run & benchmark DVC pipelines in Python & Jupyter notebooks.

https://github.com/biocore/q2-greengenes2 • Rank 8.9 • Science 59%

A QIIME 2 plugin for interaction with the Greengenes2 database

pybop • Rank 13.9 • Science 54%

A parameterisation and optimisation package for battery models.

crmPack • Rank 18.9 • Science 49%

Object-Oriented Implementation of CRM Designs

BioCro • Rank 18.9 • Science 49%

https://github.com/ydataai/ydata-synthetic • Rank 18.9 • Science 49%

Synthetic data generators for tabular and time-series data

@explorable-viz/fluid • Rank 13.9 • Science 54%

Data-linked visualisations

gstat • Rank 21.9 • Science 46%

Spatial and spatio-temporal geostatistical modelling, prediction and simulation

QPSReader • Rank 10.9 • Science 57%

A reader for MPS and QPS files

https://github.com/alan-turing-institute/pymc3 • Rank 8.9 • Science 59%

Probabilistic Programming in Python: Bayesian Modeling and Probabilistic Machine Learning with Theano

dynamicsdm • Rank 8.8 • Science 59%

An R package for species geographical distribution and abundance modelling at high spatiotemporal resolution

osmogrid • Rank 5.8 • Science 62%

OSMoGrid is a tool to generate life like electrical grid models based on publicly available data, mainly OpenStreetMap. The tool puts a special focus on low voltage grids.

nimpa • Rank 8.8 • Science 59%

NiftyPET: Neuro-Image Manipulation, Processing and Analysis

https://github.com/amypad/spm12 • Rank 8.8 • Science 59%

Python wrapper around MATLAB and SPM12

gcam-core • Rank 10.8 • Science 57%

GCAM -- The Global Change Analysis Model

lightning-uq-box • Rank 13.8 • Science 54%

Lightning-UQ-Box: Uncertainty Quantification for Neural Networks with PyTorch and Lightning

https://github.com/broadinstitute/str-analysis • Rank 10.8 • Science 57%

Scripts and utilities related to analyzing short tandem repeats (STRs).

@stdlib/random-base-improved-ziggurat • Rank 10.8 • Science 57%

Normally distributed pseudorandom numbers using the improved Ziggurat method.

phenesse • Rank 8.8 • Science 59%

matgl • Rank 18.8 • Science 49%

Graph deep learning library for materials

constrain • Rank 5.8 • Science 62%

Control Strainer (ConStrain) is a data-driven knowledge-integrated framework that automatically verifies that building system controls function as intended.

gridding-cookbook • Rank 3.8 • Science 64%

Small cookbook to review xarray gridding

Potnia — Peer-reviewed • Rank 8.8 • Science 59%

Potnia: A Python library for the conversion of transliterated ancient texts to Unicode - Published in JOSS (2025)

pbxplore • Rank 8.8 • Science 59%

A suite of tools to explore protein structures with Protein Blocks :snake:

grounded-segment-anything • Rank 13.8 • Science 54%

Grounded SAM: Marrying Grounding DINO with Segment Anything & Stable Diffusion & Recognize Anything - Automatically Detect , Segment and Generate Anything

segregation • Rank 10.8 • Science 57%

R package to calculate entropy-based segregation indices, with a focus on the Mutual Information Index (M) and Theil’s Information Index (H)

version_gem • Rank 23.8 • Science 44%

🔖 Enhance that VERSION! Sugar for boring Version modules

sumo — Peer-reviewed • Rank 8.8 • Science 59%

sumo: Command-line tools for plotting and analysis of periodic *ab initio* calculations - Published in JOSS (2018)

libpysal • Rank 21.8 • Science 46%

Core components of Python Spatial Analysis Library

upkie • Rank 13.8 • Science 54%

Open-source wheeled biped robots

delly2 • Rank 8.8 • Science 59%

DELLY2: Structural variant discovery by integrated paired-end and split-read analysis

docker-ros-ml-images • Rank 5.8 • Science 62%

Machine Learning-Enabled ROS Docker Images

binlets • Rank 10.7 • Science 57%

Denoising via adaptive binning.

datatools • Rank 5.7 • Science 62%

A set of tools for working with JSON, CSV and Excel workbooks

fair-test • Rank 5.7 • Science 62%

☑️ A library to build and deploy FAIR metrics tests APIs that can be used by FAIR evaluation services supporting the FAIRMetrics specifications, such as FAIR enough and the FAIR evaluator.

stdpopsim • Rank 18.7 • Science 49%

A library of standard population genetic models

fitdistrplus • Rank 18.7 • Science 49%

Help to Fit of a Parametric Distribution to Non-Censored or Censored Data

pynauty • Rank 13.7 • Science 54%

Isomorphism testing and automorphisms of graphs

mulimgviewer • Rank 13.7 • Science 54%

MulimgViewer is a multi-image viewer that can open multiple images in one interface, which is convenient for image comparison and image stitching.

bevo_iaq • Rank 5.7 • Science 62%

BEVO Beacon with more robust air quality monitoring

Rfast • Rank 18.7 • Science 49%

A collection of Rfast functions for data analysis. Note 1: The vast majority of the functions accept matrices only, not data.frames. Note 2: Do not have matrices or vectors with have missing data (i.e NAs). We do no check about them and C++ internally transforms them into zeros (0), so you may get wrong results. Note 3: In general, make sure you give the correct input, in order to get the correct output. We do no checks and this is one of the many reasons we are fast.

stream-learn • Rank 10.7 • Science 57%

The stream-learn is an open-source Python library for difficult data stream analysis.

https://github.com/cans-world/cans • Rank 8.7 • Science 59%

A code for fast, massively-parallel direct numerical simulations (DNS) of canonical flows

wiki-entity-summarization-preprocessor • Rank 0.7 • Science 67%

Convert Wikidata and Wikipedia raw files to filterable formats with a focus of marking Wikidata as summaries based on their Wikipedia abstracts.

comparative_ml_analysis_bioinformatics • Rank 0.7 • Science 67%

A comprehensive analysis of gene expression data using machine learning techniques in Python and R, focusing on predictive modeling and data visualization

timingafs • Rank 0.7 • Science 67%

Framework for projecting the timing of frequency amplifications of extreme sea levels

radsel • Rank 0.7 • Science 67%

Radius selection using kernel density estimation for the computation of nonlinear measures

noisy-sentences-dataset • Rank 0.7 • Science 67%

550K sentences in 5 European languages augmented with noise for training and evaluating spell correction tools or machine learning models.

waveglow-cli • Rank 0.7 • Science 67%

Command-line interface (CLI) to train WaveGlow using .wav files.

ccbs-study-3 • Rank 0.7 • Science 67%

Does Adolescent and Adult Training Impact Canine Behavior Outcomes?

graph-csr-openmp • Rank 0.7 • Science 67%

Design of high-performance OpenMP-based parallel Graph Edgelist and Compressed Sparse Row (CSR) loader, aka GVEL.

shellbedcondensator • Rank 0.7 • Science 67%

Shiny app visualizing the effects of sedimentary condensation

template-repo-data-analysis • Rank 0.7 • Science 67%

Reusable, project-oriented data analysis template designed to align with the FAIR principles. The template offers a structured and scalable approach for managing scientific data and code, particularly suited for collaborative and open science environments.

random-streams-mt19937 • Rank 0.7 • Science 67%

Create a readable stream for a 32-bit Mersenne Twister pseudorandom number generator.

https://github.com/acdh-oeaw/histogis-data • Rank 0.7 • Science 67%

Data created by HistoGIS

visually_significant_cataract • Rank 0.7 • Science 67%

randomize-apps-otree • Rank 0.7 • Science 67%

Fix to randomize apps in oTree >= 5.4.0

subtitle-word-frequencies • Rank 0.7 • Science 67%

Analyse word frequencies from webVTT subtitles

savannacorridors • Rank 0.7 • Science 67%

Analysis of palaeoecological records across South-East Asia to determine the evidence for regime shifts between open savannas and dense tropical forests occurred since the Last Glacial Maximum

who-owns-mass • Rank 0.7 • Science 67%

Documentation and parent module for Who Owns Massachusetts.

superhighwaysspreadmodel • Rank 0.7 • Science 67%

‘Superhighways’ of human movement in Sahul combined with a demographic cellular automaton

https://github.com/coganlab/cross_patient_speech_decoding • Rank 0.7 • Science 67%

Cross-patient speech decoding on neural data aligned to a shared latent space

swift-dependabotscan-test3 • Rank 0.7 • Science 67%

swift-dependabotscan-test3

synthpred • Rank 0.7 • Science 67%

A Julia package for synthetic data analysis, advanced imputation (ARIMA, RNN), AutoML, and ensemble modeling.

storage-ring-gravitational-wave-observatory • Rank 0.7 • Science 67%

Simulating the detection of millihertz (mHz) gravitational waves (GWs) from astrophysical sources by a Storage Ring Gravitational-wave Observatory (SRGO).

pest-risk-decision • Rank 0.7 • Science 67%

Code for our paper "Combining spatio-temporal pest risk prediction and decision theory to improve pest management in smallholder agriculture"

coloringbook-utils • Rank 0.7 • Science 67%

s-disco • Rank 0.7 • Science 67%

S-Disco - stellar discovery app

green-value-chains • Rank 0.7 • Science 67%

Research software used for techno-economic analysis of the impact of global heterogeneity of renewable energy supply on heavy industrial production and green value chains

paper-nestedner-icdar23-code • Rank 0.7 • Science 67%

All the material (code, dataset, results) of our Benchmark of Nested NER approaches accepted at ICDAR 2023

competing-representations-shape-evidence-accumulation • Rank 0.7 • Science 67%

Human and sim. behavioral / small-scale neural data for paper: https://www.biorxiv.org/content/10.1101/2022.10.03.510668v2

openmc-plasma-source • Rank 10.7 • Science 57%

Creates a plasma source as an openmc.source object from input parameters that describe the plasma

Integrated hydrologic model development and postprocessing for GSFLOW using pyGSFLOW — Peer-reviewed • Rank 8.7 • Science 59%

Integrated hydrologic model development and postprocessing for GSFLOW using pyGSFLOW - Published in JOSS (2022)

edtools • Rank 8.7 • Science 59%

Collection of tools for automated processing and clustering of electron diffraction data

muscat • Rank 18.7 • Science 49%

Multi-sample multi-group scRNA-seq analysis tools

https://github.com/bluebrain/brayns • Rank 13.7 • Science 54%

Visualizer for large-scale and interactive ray-tracing of neurons

AtomsBase • Rank 13.6 • Science 54%

A Julian abstract interface for atomic structures.

pylith • Rank 8.6 • Science 59%

PyLith is a finite element code for the solution of dynamic and quasi-static tectonic deformation problems.

rustc-dev-guide • Rank 13.6 • Science 54%

A guide to how rustc works and how to contribute to it.

ode-test-problems • Rank 5.6 • Science 62%

A MATLAB suite of initial value problems

rGREAT • Rank 18.6 • Science 49%

GREAT Analysis - Functional Enrichment on Genomic Regions

Preconditioners • Rank 10.6 • Science 57%

A few preconditioners for iterative solvers.

birdie • Rank 8.6 • Science 59%

Bayesian Instrumental Regression for Disparity Estimation

knn-transformers • Rank 5.6 • Science 62%

PyTorch + HuggingFace code for RetoMaton: "Neuro-Symbolic Language Modeling with Automaton-augmented Retrieval" (ICML 2022), including an implementation of kNN-LM and kNN-MT

CCBlade.jl • Rank 10.6 • Science 57%

Blade Element Momentum Method for Propellers and Turbines

iea-15-240-rwt • Rank 8.6 • Science 59%

15MW reference wind turbine repository developed in conjunction with IEA Wind

chuanhuchatgpt • Rank 13.6 • Science 54%

GUI for ChatGPT API and many LLMs. Supports agents, file-based QA, GPT finetuning and query with web search. All with a neat UI.

cooltools • Rank 8.6 • Science 59%

The tools for your .cool's

quippy • Rank 18.6 • Science 49%

libAtoms/QUIP molecular dynamics framework: https://libatoms.github.io

Cubature • Rank 13.6 • Science 54%

One- and multi-dimensional adaptive integration routines for the Julia language

2019-06-19-serc • Rank 5.6 • Science 62%

auto-fox • Rank 8.6 • Science 59%

A library for analyzing potential energy surfaces (PESs) and using the resulting PES descriptors for constructing forcefield parameters.

apread • Rank 10.6 • Science 57%

Python package for reading catmanAP binary files.

diffrg • Rank 3.6 • Science 64%

The Discretization Framework for functional Renormalization Group flows

vega-plus • Rank 8.6 • Science 59%

Make Vega charts of large datasets

markovjunior • Rank 10.6 • Science 57%

Probabilistic language based on pattern matching and constraint propagation, 153 examples

caldera • Rank 13.6 • Science 54%

Automated Adversary Emulation Platform

Diart — Peer-reviewed • Rank 18.6 • Science 49%

Diart: A Python Library for Real-Time Speaker Diarization - Published in JOSS (2024)

fplanck • Rank 8.6 • Science 59%

Numerically solve the Fokker-Planck equation in N dimensions