JOSS collection | Ecosyste.ms: Summary

https://github.com/ornlpmcp/ASCENDS

Advanced data SCiEnce toolkit for Non-Data scientists

Last synced: 20 Aug 2026

https://github.com/kdm9/Acanthophis

A comprehensive, opinionated plant metagenomics and variant calling pipeline in Snakemake

Last synced: 21 Aug 2026

https://github.com/mlindsk/molic

Multivariate Outlierdetection In Contingency Tables

categorical-data contingency-tables decomposable-graphical-models high-dimensional-data outlier-detection

Last synced: 20 Aug 2026

https://github.com/trichter/yam

Yet another monitoring tool using correlations of ambient noise

Last synced: 20 Aug 2026

https://github.com/ropensci/concstats

Market Structure, Concentration, and Inequality Measures

business-analytics competition concentration diversity inequality package-development r r-package

Last synced: 21 Aug 2026

https://github.com/lorenzo-rovigatti/oxDNA

The standalone code to simulate the oxDNA/oxRNA models, now equipped with Python bindings and the oxDNA_analysis_tools suite

dna physics-simulation simulation

Last synced: 20 Aug 2026

https://gitlab.com/pythia-uq/pythia

PyThia Uncertainty Quantification Toolbox

Last synced: 21 Aug 2026

https://github.com/callat-qcd/espressodb

Science database interface using Django as the content manager.

Last synced: 20 Aug 2026

https://github.com/ejhigson/dyPolyChord

Super fast dynamic nested sampling with PolyChord (Python, C++ and Fortran likelihoods).

dynamic-nested-sampling nested-sampling

Last synced: 20 Aug 2026

https://github.com/polca/pathways

Scenario-wide Life Cycle Assessment

energy lca prospective scenario

Last synced: 20 Aug 2026

https://github.com/OpenMD/OpenMD/

Molecular Dynamics in the Open

Last synced: 20 Aug 2026

https://github.com/oschwengers/referenceseeker

Rapid determination of appropriate reference genomes.

ani bioinformatics mash microbiology reference-genomes refseq wgs

Last synced: 20 Aug 2026

https://github.com/dunnkers/fseval

Benchmarking framework for Feature Selection and Feature Ranking algorithms 🚀

automl benchmarking benchmarking-framework benchmarks feature-rankers feature-ranking feature-selection hydra machine-learning python scikit-learn wandb

Last synced: 20 Aug 2026

https://github.com/pikarpov-LANL/Sapsan

ML-based turbulence modeling for astrophysics

astrophysics machine-learning pytorch turbulence

Last synced: 20 Aug 2026

https://github.com/NBISweden/GUESSmyLT

An efficient way to guess the library type of your RNA-Seq data.

guesser library orientation rna-seq standed

Last synced: 20 Aug 2026

https://github.com/wilkelab/Opfi

A Python package for discovery, annotation, and analysis of gene clusters in genomics or metagenomics data sets.

Last synced: 21 Aug 2026

https://github.com/flu-crew/smot

Simple Manipulation Of Trees

Last synced: 20 Aug 2026

https://github.com/dfki-ric/movement_primitives/

Dynamical movement primitives (DMPs), probabilistic movement primitives (ProMPs), and spatially coupled bimanual DMPs for imitation learning.

python robotics

Last synced: 21 Aug 2026

https://github.com/nismod/ukpopulation

Population and demographics projection module, developed for ITRC/MISTRAL

demographics population

Last synced: 20 Aug 2026

https://github.com/MillionConcepts/lhorizon

lhorizon helps you find things in the Solar System.

ephemerides planetary-science python

Last synced: 20 Aug 2026

https://github.com/johannes-titz/cofad

Last synced: 21 Aug 2026

https://github.com/rikenbit/iTensor

R package for ICA-based Matrix/Tensor Decomposition

Last synced: 21 Aug 2026

https://github.com/arfc/moltres

Repository for Moltres, a code for simulating Molten Salt Reactors

fem finite-elements molten-salt-reactors moose multi-physics object-oriented parallel software

Last synced: 20 Aug 2026

https://github.com/kerkelae/disimpy

Massively parallel Monte Carlo diffusion MR simulator written in Python.

cuda diffusion-mri gpu-computing monte-carlo-simulation

Last synced: 20 Aug 2026

https://github.com/sumn2u/annotate-lab

Annotate-lab is an open-source image annotation tool for efficient dataset creation. With an intuitive interface and flexible export options, it streamlines your machine learning workflow. 🖼️✏️📑

annotation-tool classification collaborate computer-vision image-annotation image-labeling image-masking image-segmentation machine-learning python react segmentation

Last synced: 20 Aug 2026

https://github.com/stulp/dmpbbo

Python/C++ library for Dynamical Movement Primitives and Black-Box Optimization

Last synced: 21 Aug 2026

https://github.com/laempy/pyoints

Pyoints: A Python package for point cloud, voxel and raster processing.

Last synced: 20 Aug 2026

https://github.com/rajarshi008/Scarlet

Tool for learning linear temporal logic formulas using combinatorial approach

Last synced: 21 Aug 2026

https://github.com/PetervanLunteren/AddaxAI

AI-assisted camera trap analysis: detection, species recognition, verification, dashboards and exports. Free, open source, for Windows, macOS and Linux.

cameratraps conservation-ai machine-learning-algorithms megadetector object-detection-model python3

Last synced: 21 Aug 2026

https://github.com/esa/torchquad/

Numerical integration in arbitrary dimensions on the GPU using PyTorch / TF / JAX

automatic-differentiation gpu high-performance-computing integration machine-learning monte-carlo-integration multidimensional-integration numerical-integration python pytorch torchquad vegas vegas-enhanced

Last synced: 20 Aug 2026

https://github.com/semiautomaticgit/SemiAutomaticClassificationPlugin

Last synced: 20 Aug 2026

https://github.com/jmborr/idpflex

Analysis of intrinsically disordered proteins by comparing MD simulations to Small Angle Scattering experiments

intrinsically-disordered lmfit md neutron proteins sans saxs scattering simulations

Last synced: 20 Aug 2026

https://github.com/arjunsavel/cortecs

Compressed representations of opacity for radiative transfer!

astronomy atmospheres exoplanets radiative-transfer

Last synced: 20 Aug 2026

https://github.com/rikenbit/dcTensor

R package for Discrete Matrix/Tensor Decomposition

Last synced: 21 Aug 2026

https://github.com/jeertmans/DiffeRT2d

2D Toolbox for Differentiable Ray Tracing

2d differentiable raytracing telecommunications

Last synced: 21 Aug 2026

https://github.com/dahtah/imager

R package for image processing

cimg image-processing r

Last synced: 20 Aug 2026

https://github.com/OwenWard/ppdiag

Last synced: 21 Aug 2026

https://github.com/USU-Analytics-Solution-Center/Bruno.jl

Repository for the Julia package with financial tools for data generation, asset pricing and strategy testing

Last synced: 20 Aug 2026

https://github.com/wino6687/SWEpy

Python library for scraping, subsetting, and concatenating temperature brightness data for analyzing SWE.

Last synced: 20 Aug 2026

https://github.com/jakobbossek/grapherator

A modular multi-step graph generator

combinatorial-optimization graph-generator minimum-spanning-tree multi-objective-optimization optimization

Last synced: 20 Aug 2026

https://github.com/kirui93/ScenTrees.jl

Julia Package for Generating Scenario Trees and Scenario Lattices for Multistage Stochastic Optimization

julia multistage-stochastic-optimization scenario-lattice scenario-tree scenario-tree-generation stochastic-data stochastic-processes

Last synced: 21 Aug 2026

https://github.com/SWIFTSIM/emulator

The SWIFT simulation cosmological emulator (swift-emulator)

machine-learning

Last synced: 20 Aug 2026

https://github.com/genenetwork/genenetwork2

GeneNetwork (2nd generation)

Last synced: 20 Aug 2026

https://github.com/JuliaQX/QXTools.jl

Julia package for quantum circuit simulation using tensor networks

Last synced: 21 Aug 2026

https://github.com/imr-framework/OCTOPUS

Off-resonance Correction OPen soUrce Software

Last synced: 20 Aug 2026

https://github.com/Magritte-code/Magritte

A modern software library for simulating radiation transport.

astrophysics physics-simulation radiative-transfer

Last synced: 21 Aug 2026

https://github.com/SamDuffield/bmm

Map-matching using particle smoothing methods.

Last synced: 21 Aug 2026

https://github.com/twosixlabs/magicwand-datatool

Magicwand tool to generate tcp traffic data

Last synced: 20 Aug 2026

https://github.com/Moore-Institute-4-Plastic-Pollution-Res/One4All

R package for data validation and visualization with a focus on microplastic data.

Last synced: 20 Aug 2026

https://github.com/kazewong/flowMC

Normalizing-flow enhanced sampling package for probabilistic inference in Jax

jax mcmc normalizing-flows stat

Last synced: 20 Aug 2026

https://github.com/LeoEgidi/pivmet

pivmet: an R package proposing pivotal methods for consensus clustering and mixture modeling

Last synced: 21 Aug 2026

https://github.com/Chilipp/psyplot

Python package for interactive data visualization

Last synced: 20 Aug 2026

https://github.com/ClaudioZandonella/PRDA

R Package for Prospective and Retrospective Design Analysis

design-analysis r r-package statistics

Last synced: 21 Aug 2026

https://github.com/riatelab/osrm/

Interface between R and the OpenStreetMap-based routing service OSRM

cran openstreetmap osrm r r-package shortest-paths travel

Last synced: 20 Aug 2026

https://github.com/ldliao/jointVIP

Prioritize variables in observational study design through the joint variable importance plot; shiny app: https://ldliao.shinyapps.io/jointVIP/

causal-inference observational-study r rstats study-design

Last synced: 20 Aug 2026

https://github.com/GalagaBits/JWST-FGS-Spelunker

JWST FGS Spelunker is a package that assists and finds technical anomalies from the JWST and stellar properties from guidestars.

fgs guidestar jwst

Last synced: 21 Aug 2026

https://github.com/phenoscape/scowl

A Scala DSL for programming with the OWL API.

Last synced: 20 Aug 2026

https://github.com/cmutel/pandarus

GIS toolkit for regionalized life cycle assessment

Last synced: 20 Aug 2026

https://github.com/jranalli/solarspatialtools

Library of tools used to support spatial analyses of solar energy

Last synced: 20 Aug 2026

https://github.com/ISISNeutronMuon/quickBayes

A Python package for Bayesian analysis of data.

bayes python

Last synced: 21 Aug 2026

https://github.com/moldyn/msmhelper

Helper function for Markov State Models

Last synced: 20 Aug 2026

https://github.com/fsobral/RAFF.jl

Robust Algebraic Fitting Function project

julia-package lower-order-value-optimization model-adjustment optimization-algorithms

Last synced: 20 Aug 2026

https://github.com/amisr/amisrsynthdata

Module for generating synethetic AMISR data files

Last synced: 20 Aug 2026

https://github.com/p-slash/qsonic

Continuum fitting for DESI

Last synced: 21 Aug 2026

https://github.com/bede/kindel

Indel-aware consensus for aligned BAM

Last synced: 20 Aug 2026

https://github.com/ModelOriented/pyCeterisParibus

Python library for Ceteris Paribus Plots (What-if plots)

ceteris-paribus-plots explainable-ai python-library

Last synced: 20 Aug 2026

https://github.com/caimeng2/seesus

A Python package that identifies 17 Sustainable Development Goals and their 169 Targets in text, and classifies into social, environmental, and economic sustainability.

classification regular-expressions sdg sustainability sustainability-developoment-goals text-mining

Last synced: 21 Aug 2026

https://github.com/METHODS-Group/DRDMannTurb

Data-driven synthetic turbulence generation based on the Mann model

Last synced: 20 Aug 2026

https://github.com/SharmaLlama/ticktack

An open-source carbon box model implementation built on JAX.

Last synced: 20 Aug 2026

https://github.com/Shyentist/fish-r-man

A bundle of analytics tools for fisheries scientists

dashboard fisheries fisheries-management fisheries-research fishing-effort global-fishing-watch globalfishingwatch marine-biology open-source r r-package shiny

Last synced: 21 Aug 2026

https://github.com/Infineon/StreamGen

Python framework for generating streams of labeled data.

continual-learning data-generation data-streams data-structures function-composition python

Last synced: 20 Aug 2026

https://github.com/lucask07/instrbuilder

Last synced: 20 Aug 2026

https://github.com/bmcage/odes/

The ODES scikit for ordinary differential and algebraic equations, an extension to scipy

Last synced: 20 Aug 2026

https://github.com/dominic-chang/Krang.jl

Fast analytic raytracing around Kerr black holes

automatic-differentiation black-hole general-relativity gpu-acceleration julia kerr raytracer raytracing

Last synced: 20 Aug 2026

https://github.com/PIK-LPJmL/lpjmlkit

A collection of basic functions to facilitate the work with the DGVM LPJmL hosted at the Potsdam Institute for Climate Impact Research. It provides functions for running LPJmL, as well as reading, processing and writing model-related data such as inputs and outputs or configuration files.

cran r r-package

Last synced: 20 Aug 2026

https://github.com/BobAubouin/Python_Anesthesia_Simulator

Simulate the effect of drugs during total intrevenous anesthesia

anesthesia drug-dosage simulation

Last synced: 21 Aug 2026

https://github.com/tresoldi/ngesh

A Python library for generating random phylogenetic trees and related data

Last synced: 21 Aug 2026

https://github.com/EGaraldi/corecon

User-friendly collection of Reionization-related constraints

Last synced: 21 Aug 2026

https://github.com/cicirello/Chips-n-Salsa

A Java library of Customizable, Hybridizable, Iterative, Parallel, Stochastic, and Self-Adaptive Local Search Algorithms

adaptive discrete-optimization evolutionary-computation genetic-algorithm hbss hill-climbing java local-search metaheuristics multithreading mutation optimization parallel-computing permutations randomized-heuristics scheduling search-algorithm simulated-annealing stochastic-sampling vbss