mispr • Rank 7.1 • Science 77%

A software for automating materials science computations

river • Rank 25.1 • Science 59%

🌊 Online machine learning in Python

codecarbon • Rank 25.1 • Science 59%

Track emissions from Compute and recommend ways to reduce their impact on the environment.

llmonfhir • Rank 7.0 • Science 77%

A Demonstration using LLMs to Explain Health Records

open-grid-emissions • Rank 7.0 • Science 77%

Tools for producing high-quality hourly generation and emissions data for U.S. electric grids

labelfusion • Rank 7.0 • Science 77%

Implementation of various label fusion approaches for medical imaging.

onglai-classify-homologues • Rank 7.0 • Science 77%

OngLai: A cheminformatics algorithm to classify homologous chemical series

o2r-meta • Rank 7.0 • Science 77%

Metadata toolsuite for an extract-map-validate workflow supporting reproducible research

forefire • Rank 7.0 • Science 77%

ForeFire is an open-source code for wildland fire spread models

khroma • Rank 7.0 • Science 77%

Colour Schemes for Scientific Data Visualization - :exclamation: This is a read-only mirror from https://codeberg.org/tesselle/khroma

roux • Rank 7.0 • Science 77%

🧰Convenient functions in Python.

harmonica • Rank 16.9 • Science 67%

Forward modeling, inversion, and processing gravity and magnetic data

curategpt • Rank 6.9 • Science 77%

LLM-driven curation assist tool

sqlmodel • Rank 29.9 • Science 54%

SQL databases in Python, designed for simplicity, compatibility, and robustness.

sidetrack • Rank 8.9 • Science 75%

Simple debug tracing package for Python, with optimization support.

datastew • Rank 8.9 • Science 75%

Python library for intelligent data stewardship using Large Language Model (LLM) embeddings

XGI — Peer-reviewed • Rank 16.9 • Science 67%

XGI: A Python package for higher-order interaction networks - Published in JOSS (2023)

trufflesqueak • Rank 8.9 • Science 75%

A Squeak/Smalltalk VM and Polyglot Programming Environment for the GraalVM.

python-neo • Rank 21.9 • Science 62%

Neo is a package for representing electrophysiology data in Python, together with support for reading a wide range of neurophysiology file formats

novu • Rank 29.9 • Science 54%

The open-source notification Inbox infrastructure. E-mail, SMS, Push and Slack Integrations.

siril • Rank 6.9 • Science 77%

This is a mirror, please report bugs to

ai-cli-lib • Rank 6.8 • Science 77%

Add AI capabilities to any readline-enabled command-line program

https://github.com/theislab/cellrank • Rank 16.8 • Science 67%

CellRank: dynamics from multi-view single-cell data

secat • Rank 6.8 • Science 77%

Size-Exclusion Chromatography Algorithmic Toolkit

nvflare • Rank 19.8 • Science 64%

NVIDIA Federated Learning Application Runtime Environment

contextualspellcheck • Rank 16.8 • Science 67%

✔️Contextual word checker for better suggestions (not actively maintained)

brainrender • Rank 16.8 • Science 67%

A Python package to visualise neuroanatomical data in atlas space

active-learning-as-a-service • Rank 6.8 • Science 77%

A scalable & efficient active learning/data selection system for everyone.

torchsr • Rank 16.8 • Science 67%

Super Resolution datasets and models in Pytorch

avalanche-lib • Rank 19.8 • Science 64%

Avalanche: an End-to-End Library for Continual Learning based on PyTorch.

is2view • Rank 6.7 • Science 77%

Interactive visualization and data extraction tool for ICESat-2 ATL14/15 Gridded Land Ice Height Products

celltypist • Rank 16.7 • Science 67%

A tool for semi-automatic cell type classification

jcvi • Rank 16.7 • Science 67%

Python library to facilitate genome assembly, annotation, and comparative genomics

splendaq • Rank 6.7 • Science 77%

Splendid Data Acquisition for small physics experiments

astroplan • Rank 19.7 • Science 64%

Observation planning package for astronomers – maintainer @bmorris3

OpenOmics — Peer-reviewed • Rank 6.7 • Science 77%

OpenOmics: A bioinformatics API to integrate multi-omics datasets and interface with public databases. - Published in JOSS (2021)

monailabel • Rank 19.6 • Science 64%

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

xarray-dataclasses • Rank 16.6 • Science 67%

:zap: xarray data creation by data classes

https://github.com/recommenders-team/recommenders • Rank 24.6 • Science 59%

Best Practices on Recommendation Systems

vembrane • Rank 6.6 • Science 77%

vembrane filters VCF records using python expressions

science.aist.gtf • Rank 6.6 • Science 77%

Graph Transformation Framework

dolma • Rank 19.6 • Science 64%

Data and tools for generating and inspecting OLMo pre-training data.

qubits • Rank 6.6 • Science 77%

Queen’s University Belfast Imitation Transient Surveys (QUBITS)

usaon-benefit-tool • Rank 6.6 • Science 77%

Application for configuring USAON Benefit Tool value tree analysis surveys and gathering input from respondents

islpy • Rank 19.6 • Science 64%

Python wrapper for isl, an integer set library

QuantumCircuitOpt • Rank 6.6 • Science 77%

A Julia/JuMP Package for Optimal Quantum Circuit Design

tada • Rank 6.6 • Science 77%

TADA - Targeted Amplicon Diversity Analysis - a DADA2-focused Nextflow workflow for any targeted amplicon region

rapidgzip • Rank 16.6 • Science 67%

Gzip Decompression and Random Access for Modern Multi-Core Machines

atelparser • Rank 6.6 • Science 77%

Download Astronomers' Telegrams and parse them to find transient names and coordinates

edrixs • Rank 6.5 • Science 77%

An open source toolkit for simulating RIXS spectra based on ED

https://github.com/adaptive-intelligent-robotics/qdax • Rank 16.5 • Science 67%

Accelerated Quality-Diversity

teaser • Rank 16.5 • Science 67%

TEASER - Tool for Energy Analysis and Simulation for Efficient Retrofit

wwfacedet • Rank 6.5 • Science 77%

This repository is used for exploratory experiments of yunet face detection. It will eventually be merged into repository libfacedetection.train

climate-cooperation-competition • Rank 6.5 • Science 77%

AI for Global Climate Cooperation: Modeling Global Climate Negotiations, Agreements, and Long-Term Cooperation in RICE-N. ai4climatecoop.org

xraylib • Rank 16.5 • Science 67%

A library for X-ray matter interaction cross sections for X-ray fluorescence applications

arcrasterrescue • Rank 6.5 • Science 77%

Extract raster data from ArcGIS/ESRI formats

click-extra • Rank 16.5 • Science 67%

🌈 Drop-in replacement for Click to make user-friendly and colorful CLI

lm-evaluation-harness-medical-specialities • Rank 6.5 • Science 77%

sloancone • Rank 6.4 • Science 77%

SDSS conesearching tools via the CL. Put down conesearch results, or simply check whether or not a location in the sky has been covered by SDSS.

clipseq • Rank 6.4 • Science 77%

CLIP sequencing analysis pipeline for QC, pre-mapping, genome mapping, UMI deduplication, and multiple peak-calling options.

uxarray • Rank 19.4 • Science 64%

Xarray extension for unstructured climate and global weather data analysis and visualization.

convertbng • Rank 16.4 • Science 67%

Fast, accurate WGS84 ⬅️➡️ OSGB36 (OSTN15) conversion, using Python and Rust

cell-analysis-tools • Rank 6.4 • Science 77%

Collection of tools used for pre-processing, processing and post processing

jellyfish • Rank 29.4 • Science 54%

🪼 a python library for doing approximate and phonetic matching of strings.

poppr • Rank 16.4 • Science 67%

🌶 An R package for genetic analysis of populations with mixed (clonal/sexual) reproduction

transientnamer • Rank 6.4 • Science 77%

Command-line tools for working with and interacting with the Transient Naming Server

neat-python • Rank 19.4 • Science 64%

Python implementation of the NEAT neuroevolution algorithm

clair • Rank 6.4 • Science 77%

C Language Analysis in Rascal

clinica • Rank 16.4 • Science 67%

Software platform for clinical neuroimaging studies

asap • Rank 6.4 • Science 77%

A scalable bacterial genome assembly, annotation and analysis pipeline

astroquery • Rank 24.3 • Science 59%

Functions and classes to access online data resources. Maintainers: @keflavich and @bsipocz and @ceb8

cim-optimizer • Rank 8.3 • Science 75%

Reference implementation of a simulator of multiple variants of the Coherent Ising Machine (CIM).

minigrid • Rank 29.3 • Science 54%

Simple and easily configurable grid world environments for reinforcement learning

cytoscape-context-menus • Rank 18.3 • Science 65%

A Cytoscape.js extension to provide context menu around elements and core instance

flo • Rank 6.3 • Science 77%

Same species annotation lift over pipeline.

dirac • Rank 24.3 • Science 59%

DIRAC Grid

ruckig • Rank 19.3 • Science 64%

Motion Generation for Robots and Machines. Real-time. Jerk-constrained. Time-optimal.

dems • Rank 8.3 • Science 75%

:truck: DESHIMA Measurement Set

tlidb • Rank 6.3 • Science 77%

Transfer Learning in Dialogue Benchmarking Toolkit

DelayDiffEq • Rank 16.2 • Science 67%

Delay differential equation (DDE) solvers in Julia for the SciML scientific machine learning ecosystem. Covers neutral and retarded delay differential equations, and differential-algebraic equations.

mosaic-clustering • Rank 8.2 • Science 75%

Correlation-based feature selection of Molecular Dynamics simulations

bactmap • Rank 6.2 • Science 77%

A mapping-based pipeline for creating a phylogeny from bacterial whole genome sequences

feflow • Rank 6.2 • Science 77%

Recipes and protocols for molecular free energy calculations using the openmmtools/perses and Open Free Energy toolkits

supervision • Rank 29.2 • Science 54%

We write your reusable computer vision tools. 💜

QuantumESPRESSOBase • Rank 6.2 • Science 77%

Provides basic data structures and helpful functions for manipulating structures, generating input files, pre-running error checks, etc.

Agents • Rank 16.2 • Science 67%

Agent-based modeling framework in Julia

prmon • Rank 6.2 • Science 77%

Standalone monitor for process resource consumption

xgcm • Rank 19.2 • Science 64%

python package for analyzing general circulation model output data

chip-atlas • Rank 6.2 • Science 77%

ChIP-Atlas: Browse and analyze all public ChIP/DNase-seq data on your browser

frankenstein • Rank 6.2 • Science 77%

Project Templates Brought to Life

agda • Rank 21.2 • Science 62%

Agda is a dependently typed programming language / interactive theorem prover.

xpdlines • Rank 6.1 • Science 77%

A program for plotting powder diffraction patterns and background subtraction

spyrmsd • Rank 16.1 • Science 67%

📐 Symmetry-corrected RMSD in Python

CityEnergyAnalyst • Rank 16.1 • Science 67%

The City Energy Analyst (CEA) is an open-source urban building energy modeling (UBEM) platform and computation tool for the design of low-carbon and highly efficient cities.

DL_Track_US — Peer-reviewed • Rank 6.1 • Science 77%

DL_Track_US: a python package to analyse muscle ultrasonography images - Published in JOSS (2023)

sumt • Rank 6.1 • Science 77%

Computes consensus trees and other phylogenetic tree summaries

meshpy • Rank 19.1 • Science 64%

2D/3D simplicial mesh generator interface for Python (Triangle, TetGen, gmsh)

magclass • Rank 16.1 • Science 67%

R package | Data Class and Tools for Handling Spatial-Temporal Data

sopnmf • Rank 6.0 • Science 77%

SOPNMF is the fast python implementation of stochastic orthogonally projective non-negative matrix factorization

dualrnaseq • Rank 6.0 • Science 77%

Analysis of Dual RNA-seq data - an experimental method for interrogating host-pathogen interactions through simultaneous RNA-seq.