HRDS — Peer-reviewed • Rank 6.8 • Science 59%

HRDS: A Python package for hierarchical raster datasets - Published in JOSS (2019)

simStateSpace • Rank 8.8 • Science 57%

Provides a streamlined and user-friendly framework for simulating data in state space models, particularly when the number of subjects/units (n) exceeds one, a scenario commonly encountered in social and behavioral sciences. For an introduction to state space models in social and behavioral sciences, refer to Chow, Ho, Hamaker, and Dolan (2010).

https://github.com/byuflowlab/flowmath.jl • Rank 8.8 • Science 57%

A collection of mathematical functions or convenience methods we frequently use that are not already readily available in Julia packages

mm-react • Rank 11.8 • Science 54%

Official repo for MM-REACT

csdR • Rank 11.8 • Science 54%

Efficient CSD implementation in R

walky • Rank 11.8 • Science 54%

A Highly Parallelized TSP Solver using MPI

osprei • Rank 1.8 • Science 64%

Code for generating Optimal Stability Polynomials in Roots for Explicit time Integration.

nu.civenv340 • Rank 1.8 • Science 64%

🌊 Supporting Material for CIV-ENV 340: Hydraulics and Hydrology - Spring/2023 - Northwestern University

omeinfo • Rank 1.8 • Science 64%

Automated retrieval of consistent geographical metadata for microbiome research!

r4ss • Rank 16.8 • Science 49%

files for r4ss package

PyGBe-LSPR — Peer-reviewed • Rank 6.8 • Science 59%

PyGBe-LSPR: Python and GPU Boundary-integral solver for electrostatics - Published in JOSS (2017)

@stdlib/assert-is-string • Rank 21.8 • Science 44%

Test if a value is a string.

@stdlib/utils-noop • Rank 21.8 • Science 44%

Function which does nothing.

utils-next-tick • Rank 21.8 • Science 44%

Add a callback to the next tick queue.

uwarl-mujoco-summit-wam-sim • Rank 3.8 • Science 62%

Mujoco Simulation Package for Waterloo steel robot

@stdlib/time • Rank 21.8 • Science 44%

Standard library time utilities.

xrprimer • Rank 11.8 • Science 54%

OpenXRLab foundational library for XR-related algorithms

KLU • Rank 11.8 • Science 54%

Julia Wrapper for the KLU sparse matrix solver from SuiteSparse

optimas • Rank 6.8 • Science 59%

Optimization at scale, powered by libEnsemble

smriprep • Rank 16.8 • Science 49%

Structural MRI PREProcessing (sMRIPrep) workflows for NIPreps (NeuroImaging PREProcessing tools)

https://github.com/blockresearchgroup/compas_tna • Rank 11.8 • Science 54%

Form finding of funicular networks in compression with vertical loads using Thrust Network Analysis

extra-map • Rank 11.8 • Science 54%

A group of functions for working with Maps.

https://github.com/chadagreene/cdt • Rank 6.8 • Science 59%

The Climate Data Toolbox for MATLAB

xdg • Rank 21.7 • Science 44%

A XDG Base Directory Specification implementation.

biobb-structure-checking • Rank 11.7 • Science 54%

augur • Rank 11.7 • Science 54%

Python library and web service for Open Source Software Health and Sustainability metrics & data collection. You can find our documentation and new contributor information easily here: https://oss-augur.readthedocs.io/en/main/

PhysioLabXR — Peer-reviewed • Rank 6.7 • Science 59%

PhysioLabXR: A Python Platform for Real-Time, Multi-modal, Brain–Computer Interfaces and Extended Reality Experiments - Published in JOSS (2024)

https://github.com/cdcgov/pyrenew • Rank 6.7 • Science 59%

Python package for multi-signal Bayesian renewal modeling with JAX and NumPyro.

https://github.com/cbg-ethz/smallgenomeutilities • Rank 8.7 • Science 57%

smallgenomeutilities is a collection of Python scripts to convert alignments between different reference genomes.

ftt_standalone • Rank 6.7 • Science 59%

Future Technology Transformation models

benfordslaw • Rank 11.7 • Science 54%

benfordslaw is about the frequency distribution of leading digits.

flaski • Rank 6.7 • Science 59%

Get your science on a leash!

viperleed • Rank 11.7 • Science 54%

ViPErLEED is a package for quantitative low-energy electron diffraction (LEED-IV).

staramr • Rank 11.7 • Science 54%

Scans genome contigs against the ResFinder, PlasmidFinder, and PointFinder databases.

crrt-route-finder • Rank 0.7 • Science 65%

Algorithm to find promising options for combined road-rail transportation in a logistics network

phylostan • Rank 6.7 • Science 59%

Phylogenetic inference using Stan

grpreg • Rank 16.7 • Science 49%

Regularization paths for regression models with grouped covariates

cell2fire • Rank 6.7 • Science 59%

For Research Use Only: A Cell Based Forest Fire Growth Model

https://github.com/chris-prener/testdriver • Rank 6.7 • Science 59%

R package with data for teaching Statistics and Data Science

lz4 • Rank 29.7 • Science 36%

LZ4 bindings for Python

https://github.com/broadinstitute/picard • Rank 29.7 • Science 36%

A set of command line tools (in Java) for manipulating high-throughput sequencing (HTS) data and formats such as SAM/BAM/CRAM and VCF.

usethis • Rank 29.7 • Science 36%

Set up commonly used 📦 components

goatools • Rank 19.7 • Science 46%

Python library to handle Gene Ontology (GO) terms

divest • Rank 16.6 • Science 49%

Get images out of DICOM format quickly

pycsvy • Rank 11.6 • Science 54%

Python reader/writer for CSV files with YAML header information

CusToM — Peer-reviewed • Rank 6.6 • Science 59%

CusToM: a Matlab toolbox for musculoskeletal simulation - Published in JOSS (2019)

python-igraph • Rank 11.6 • Science 54%

Python interface for igraph

resmush • Rank 8.6 • Science 57%

Compress local and online images using the reSmush.it API service https://resmush.it/

Optlang — Peer-reviewed • Rank 19.6 • Science 46%

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

PTXQC • Rank 16.6 • Science 49%

A Quality Control (QC) pipeline for Proteomics (PTX) results generated by MaxQuant

ds3231 • Rank 8.6 • Science 57%

Communicates between Arduino-programmed AVR and Maxim DS3231 RTC: splice of Ayars' (http://hacks.ayars.org/2011/04/ds3231-real-time-clock.html) and Jeelabs/Ladyada's (https://github.com/adafruit/RTClib) libraries

Xenomapper — Peer-reviewed • Rank 6.6 • Science 59%

Xenomapper: Mapping reads in a mixed species context - Published in JOSS (2016)

bonsai • Rank 21.6 • Science 44%

The compiler, IDE, and standard library for the Bonsai visual programming language for reactive systems

lrose-core • Rank 8.6 • Science 57%

Core C/C++ code for LROSE.

hnswlib • Rank 19.6 • Science 46%

Header-only C++/python library for fast approximate nearest neighbors

yatiml • Rank 11.6 • Science 54%

Python library for YAML type inference, schema checking and syntactic sugar

cnr-flow • Rank 1.6 • Science 64%

CUT&RUN-Flow, A Nextflow pipeline for QC, tag trimming, normalization, and peak calling for data from CUT&RUN experiments.

mhcflurry • Rank 16.6 • Science 49%

Peptide-MHC I binding affinity prediction

pywr • Rank 16.6 • Science 49%

Pywr is a generalised network resource allocation model written in Python.

@stdlib/string-format • Rank 21.6 • Science 44%

Insert supplied variable values into a format string.

@stdlib/utils-convert-path • Rank 21.6 • Science 44%

Convert between POSIX and Windows paths.

distilabel • Rank 11.6 • Science 54%

Distilabel is a framework for synthetic data and AI feedback for engineers who need fast, reliable and scalable pipelines based on verified research papers.

@stdlib/regexp • Rank 21.6 • Science 44%

Standard library regular expressions.

@stdlib/string • Rank 21.6 • Science 44%

Standard library string manipulation functions.

bugbug • Rank 11.6 • Science 54%

Platform for Machine Learning projects on Software Engineering

ampligone • Rank 8.6 • Science 57%

A tool in order to accurately remove primer sequences from NGS reads in an amplicon experiment

gmpy2 • Rank 29.6 • Science 36%

General Multi-Precision arithmetic for Python 2.6+/3+ (GMP, MPIR, MPFR, MPC)

dartr • Rank 6.6 • Science 59%

Importing and Analysing DArT type snp and silicodart data

cloud-init-examples • Rank 3.6 • Science 62%

This repository includes an example of cloud-init YAML files for use with multipass VMs.

open-source-quartz-solar-forecast • Rank 16.6 • Science 49%

Open Source Solar Site Level Forecast

pyscal — Peer-reviewed • Rank 6.6 • Science 59%

pyscal: A python module for structural analysis of atomic environments - Published in JOSS (2019)

https://github.com/anupamkaul/pythonrobotics • Rank 6.6 • Science 59%

https://github.com/asfhyp3/asf-tools • Rank 11.6 • Science 54%

A collection of GIS tools for working with higher-level SAR products

brian2genn • Rank 11.6 • Science 54%

Brian 2 frontend to the GeNN simulator

ingestr • Rank 6.6 • Science 59%

Data ingest for points (given longitude, latitude, and required dates) from large global files or remote data servers and create time series at user-specified temporal resolution.

tclf • Rank 8.6 • Science 57%

A scikit-learn compatible classifier to perform trade classification in Python.

conda-forge.github.io • Rank 11.6 • Science 54%

The conda-forge website.

statxplore • Rank 3.6 • Science 62%

This is a data harvester for the Department for Work and Pensions Stat-Explore

pyqtgraph • Rank 29.6 • Science 36%

Fast data visualization and GUI tools for scientific / engineering applications

cobramod • Rank 8.6 • Science 57%

CobraMod is a Python 3 open-source package which enables modifying and extending genome-scale metabolic models with metabolic pathway information from various metabolic pathways databases or user-curated data sets.

nv-ingest • Rank 21.5 • Science 44%

NeMo Retriever extraction is a scalable, performance-oriented document content and metadata extraction microservice. NeMo Retriever extraction uses specialized NVIDIA NIM microservices to find, contextualize, and extract text, tables, charts and images that you can use in downstream generative applications.

@0x6e616d/optimism-sdk • Rank 29.5 • Science 36%

Optimism is Ethereum, scaled.

ggRandomForests • Rank 16.5 • Science 49%

Graphical analysis of random forests with the randomForestSRC, randomForest and ggplot2 packages.

https://github.com/catalyst-cooperative/pudl-archiver • Rank 6.5 • Science 59%

A tool for capuring snapshots of public data sources and archiving them on Zenodo for programmatic use.

plot-keras-history • Rank 8.5 • Science 57%

A simple python package to print a keras NN training history.

ReservoirComputing • Rank 11.5 • Science 54%

Reservoir computing utilities for scientific machine learning (SciML)

DiffEqParamEstim • Rank 11.5 • Science 54%

Easy scientific machine learning (SciML) parameter estimation with pre-built loss functions

loris • Rank 11.5 • Science 54%

LORIS is a web-accessible database solution for longitudinal multi-site studies.

dot-language-server • Rank 11.5 • Science 54%

A language server for the DOT language.

RL — Peer-reviewed • Rank 6.5 • Science 59%

RL: Generic reinforcement learning codebase in TensorFlow - Published in JOSS (2019)

mlr3spatiotempcv • Rank 6.5 • Science 59%

Spatiotemporal resampling methods for mlr3

xrmocap • Rank 11.5 • Science 54%

OpenXRLab Multi-view Motion Capture Toolbox and Benchmark

rdhs • Rank 6.5 • Science 59%

API Client and Data Munging for the Demographic and Health Survey Data

betaNB • Rank 8.5 • Science 57%

betaNB: Generates nonparametric bootstrap confidence intervals for standardized regression coefficients and other effect sizes for models fitted by lm().

amadeus • Rank 11.5 • Science 54%

zdns • Rank 11.5 • Science 54%

Fast DNS Lookup Library and CLI Tool

gchp • Rank 6.5 • Science 59%

The "superproject" wrapper repository for GCHP, the high-performance instance of the GEOS-Chem chemical-transport model.

gpy • Rank 29.4 • Science 36%

Gaussian processes framework in python

thermo • Rank 19.4 • Science 46%

Thermodynamics and Phase Equilibrium component of Chemical Engineering Design Library (ChEDL)

Gillespie.jl — Peer-reviewed • Rank 6.4 • Science 59%

Gillespie.jl: Stochastic Simulation Algorithm in Julia - Published in JOSS (2016)