Ecosyste.ms: Summary

https://github.com/ropensci/iheatmapr

Complex, interactive heatmaps in R

data-visualization heatmap interactive-visualizations peer-reviewed plotly r r-package rstats

Last synced: 28 Sep 2026

https://github.com/ropensci/RefManageR

R package RefManageR

peer-reviewed r r-package rstats

Last synced: 28 Sep 2026

https://github.com/vanheeringen-lab/genomepy

genes and genomes at your fingertips

bioconda ensembl genome ncbi python ucsc

Last synced: 28 Sep 2026

https://github.com/xuanxu/nimbus

Nimbus is a Ruby gem to implement Random Forest algorithms in a genomic selection context

random-forest

Last synced: 28 Sep 2026

https://github.com/bjmorgan/bsym

A Basic Symmetry Module (Python)

Last synced: 28 Sep 2026

https://github.com/ropensci/visdat

Preliminary Exploratory Visualisation of Data

exploratory-data-analysis missingness peer-reviewed r r-package ropensci rstats visualisation

Last synced: 28 Sep 2026

https://github.com/Chilipp/psyplot

Python package for interactive data visualization

Last synced: 28 Sep 2026

https://github.com/MonashBioinformaticsPlatform/varistran

R package providing Variance Stabilizing Transformations appropriate for RNA-Seq data

Last synced: 28 Sep 2026

https://github.com/SebastianoF/bruker2nifti

Medical image format converter: from raw Bruker ParaVision to nifti.

Last synced: 28 Sep 2026

https://github.com/pjamesjoyce/lcopt

Create foreground LCA models via an intuitive user interface and analyse them using Brightway2

brightway2 foreground-models gui lca python

Last synced: 28 Sep 2026

https://github.com/ornl-ndav/django-remote-submission

The django-remote-submission is an asynchronous task/job queue using Celery Distributed Task Queue and Redis in-memory data structure store as message broker.

Last synced: 28 Sep 2026

https://github.com/barbagroup/AmgXWrapper

AmgXWrapper: An interface between PETSc and the NVIDIA AmgX library

amgx gpu mpi nvidia petsc

Last synced: 28 Sep 2026

https://github.com/fstrozzi/bioruby-pipengine

An ultra light YAML-based pipeline execution engine

Last synced: 28 Sep 2026

https://github.com/sequana/sequana/

Sequana: a set of Snakemake NGS pipelines

coverage de-novo ngs pacbio rna-seq sequanix snakemake taxonomy variant-calling

Last synced: 28 Sep 2026

https://github.com/ashleefv/ACEInhibPKPD

PKPD model for ACE inhibition; educational drug dosing app for treatment of high blood pressure

Last synced: 28 Sep 2026

https://github.com/adrn/schwimmbad

A common interface to processing pools.

mpi multiprocessing parallel-computing

Last synced: 28 Sep 2026

https://github.com/raamana/pyradigm

Research data management in biomedical and machine learning applications

automation biomedical data-integration data-structures datascience datastructures machine-learning machine-learning-workflows medical-data neuroimaging neuroinformatics neuroscience pandas python userfriendly workflow

Last synced: 28 Sep 2026

https://github.com/ropensci-archive/bittrex

:warning: ARCHIVED :warning: A R Client for the Bittrex Crypto-Currency Exchange

crypto-currency-exchanges finance peer-reviewed r r-package rstats

Last synced: 28 Sep 2026

https://github.com/array-split/array_split

Python package for decomposing multi-dimensional arrays into sub-arrays (slices) according to multiple criteria.

Last synced: 28 Sep 2026

https://github.com/sepandhaghighi/pyrgg

🔧 Python Random Graph Generator

beerpay generator gpu graph-computing graph-generation graph-generator gtgraph math mathematics python python3 script

Last synced: 28 Sep 2026

https://github.com/simupy/simupy

A framework for modeling and simulating dynamical systems

block-diagram python simulation simulation-framework simulation-modeling simulink

Last synced: 28 Sep 2026

https://github.com/jakobbossek/mcMST

Algorithms to solve the multi-criteria minimum spanning tree problem (mcMST) in R

cran evolutionary-algorithms mcmst minimum-spanning-trees multi-objective-optimization r spanningtrees

Last synced: 28 Sep 2026

https://github.com/ropensci-archive/bomrang

:warning: ARCHIVED :warning: Australian government Bureau of Meteorology (BOM) data client for R

australia australia-bureau-of-meteorology bom meteorological-data meteorology peer-reviewed r r-package rstats weather weather-data weather-forecast

Last synced: 28 Sep 2026

https://github.com/ecrl/ecnet

QSPR-based PyTorch models for fuel property prediction, with bundled datasets and analytical blend rules

cetane-number computational-chemistry fuel-property-prediction machine-learning neural-network pytorch qspr

Last synced: 28 Sep 2026

https://github.com/timfolsom/hei

R Package for Calculating Healthy Eating Index (HEI) Scores

Last synced: 28 Sep 2026

https://github.com/ContextLab/quail

A python toolbox for analyzing and plotting free recall data

memory psychology-experiments python-toolbox speech-to-text

Last synced: 28 Sep 2026

https://github.com/mattbellis/hmis

A set of Python tools to parse files from a standard dump of HMIS (Homeless Management Information System) data and do some simple analysis and visualization.

Last synced: 28 Sep 2026

https://github.com/adrn/gala

Galactic and gravitational dynamics in Python

astronomy astrophysics astropy-affiliated dynamics physics python

Last synced: 28 Sep 2026

https://github.com/uglymol/uglymol

Macromolecular viewer for crystallographers (WebGL)

ccp4 crystallography electron-density macromolecular-crystallography molecular-graphics webgl

Last synced: 28 Sep 2026

https://github.com/conradsnicta/armadillo-gmm

gmm_diag and gmm_full: C++ classes for multi-threaded Gaussian mixture models and Expectation-Maximisation

armadillo clustering clustering-algorithm cpp em-algorithm expectation-maximization gaussian-mixture-models gmm k-means k-means-clustering machine-learning mapreduce openmp statistics

Last synced: 28 Sep 2026

https://github.com/singularityhub/sregistry

server for storage and management of singularity images

containers management registry singularity singularity-containers singularityhub

Last synced: 28 Sep 2026

https://github.com/genexplain/geneXplainR

An R interface for the geneXplain platform

Last synced: 28 Sep 2026

https://github.com/biogo/ncbi

bíogo ncbi utilities repository

Last synced: 28 Sep 2026

https://github.com/bebatut/enasearch

A Python library for interacting with ENA's API

api api-client ena

Last synced: 28 Sep 2026

https://github.com/cokelaer/spectrum

Spectral Analysis in Python

arma fourier pburg periodogram psd python spectral

Last synced: 28 Sep 2026

https://github.com/JuliaDynamics/ResumableFunctions.jl

C# style generators a.k.a. semi-coroutines for Julia.

finite-state-machine iterator julia semi-coroutine stackless

Last synced: 28 Sep 2026

https://github.com/josejimenezluna/pyGPGO

Bayesian optimization for Python

bayesian machine-learning optimization

Last synced: 28 Sep 2026

https://github.com/mdbloice/Augmentor

Image augmentation library in Python for machine learning.

augmentation deep-learning machine-learning neural-networks

Last synced: 28 Sep 2026

https://github.com/haythamfayek/MatDL

A Lightweight Deep Learning Library in MATLAB

deep-learning machine-learning neural-networks

Last synced: 28 Sep 2026

https://github.com/scikit-learn-contrib/forest-confidence-interval

Confidence intervals for scikit-learn forest algorithms

Last synced: 28 Sep 2026

https://github.com/randlab/hytool

Hytool is a matlab toolbox for the interpretation of hydraulic tests in wells. The toolbox contains analytical solutions used to describe groundwater flow around wells, and functions for importing, displaying, and fitting a model to the data.

data-analysis hydrogeology matlab pumping-test well-testing

Last synced: 28 Sep 2026

https://github.com/ropensci/codemetar

an R package for generating and working with codemeta

codemeta json-ld metadata peer-reviewed r r-package rstats

Last synced: 29 Sep 2026

https://github.com/weecology/retriever

Quickly download, clean up, and install public datasets into a database management system

data data-retrieval data-science dataset datasets hacktobefest python

Last synced: 28 Sep 2026

https://github.com/msmbuilder/mdentropy/

Analyze correlated motions in MD trajectories with only a few lines of Python.

Last synced: 28 Sep 2026

https://github.com/ornlneutronimaging/ImagingReso

Resonance Imaging

Last synced: 28 Sep 2026

https://github.com/JuliaDynamics/DynamicalBilliards.jl

An easy-to-use, modular, extendable and absurdly fast Julia package for dynamical billiards in two dimensions.

billiard-systems billiards chaos geometry julia julialang lyapunov-spectrum models particles physics

Last synced: 28 Sep 2026

https://github.com/virgesmith/UKCensusAPI

UK Census Data queries and downloads from python or R

data-science python r

Last synced: 28 Sep 2026

https://github.com/neuropsychology/Neuropsydia.py/

A Python Module for Creating Experiments, Tasks and Questionnaires.

assessment experiments neuropsychology psychology python questionnaire tasks

Last synced: 28 Sep 2026

https://github.com/raamana/hiwenet

Histogram-weighted Networks for Connectivity & Advanced Analysis in Neuroscience

biomarkers connectivity feature-extraction graph histogram-weighted-networks machine-learning neuroimaging neuroscience

Last synced: 28 Sep 2026

https://github.com/pygbe/pygbe

PyGBe: Python, GPUs and Boundary elements for electrostatics

Last synced: 28 Sep 2026

https://github.com/ros-controls/joss_paper

Last synced: 28 Sep 2026

https://github.com/physicsdavid/mPicker

WEBGL 3D object picker for p5.js

Last synced: 28 Sep 2026

https://github.com/ropensci/bikedata

:bike: Extract data from public hire bicycle systems

bicycle-hire bicycle-hire-systems bike-data bike-hire database peer-reviewed r r-package rstats

Last synced: 28 Sep 2026

https://github.com/Genomon-Project/paplot/

paplot creates various dynamic and interactive reports for cancer genome analysis.

Last synced: 28 Sep 2026

https://github.com/xBimTeam/XbimEssentials

A .NET library to work with data in the IFC format. This is the core component of the Xbim Toolkit

bim cobie express ifc ifc2x3 ifc4 iso16739 openbim step21

Last synced: 28 Sep 2026

https://github.com/ITWM-TVFS/Ensight4Matlab

Ensight4Matlab let's you read, process, and write files in EnSight Case Gold format from your C++ or MATLAB® code.

c-plus-plus cfd ensight matlab matlab-wrapper

Last synced: 28 Sep 2026

https://github.com/ropensci/tidyhydat

An R package to import Water Survey of Canada hydrometric data and make it tidy

citz government-data hydrology hydrometrics r r-package rstats tidy-data water-resources

Last synced: 28 Sep 2026

https://github.com/iljah/hdintegrator

Last synced: 28 Sep 2026

https://github.com/dsuess/mpnum

Matrix Product Representation library for Python

dmrg matrix-product tensor-train

Last synced: 28 Sep 2026

https://github.com/ropensci-archive/cleanEHR

:warning: ARCHIVED :warning: Essential tools and utility functions to facilitate the data processing pipeline, data cleaning and data analysing of clinical data from CC-HIC

big-data critical-care electronic-health-record healthcare intensive-care r r-package rstats

Last synced: 28 Sep 2026

https://github.com/bjodah/pyodesys

∫ Straightforward numerical integration of systems of ordinary differential equations

code-generation initial-value-problem numerical-codes ordinary-differential-equations symbolic-manipulation sympy

Last synced: 28 Sep 2026

https://github.com/paulgovan/BayesianNetwork

Bayesian Network Modeling and Analysis

bayesian-networks learning-algorithm network-measures r

Last synced: 28 Sep 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: 28 Sep 2026

https://github.com/databio/simpleCache

Simplified R caching for reproducible big data projects

Last synced: 28 Sep 2026

https://github.com/ljvmiranda921/pyswarms

A research toolkit for particle swarm optimization in Python

algorithm discrete-optimization global-optimization machine-learning metaheuristics optimization optimization-algorithms optimization-tools particle-swarm-optimization pso swarm-intelligence

Last synced: 28 Sep 2026

https://github.com/lebebr01/highlightHTML

R package to seamlessly format text and summary tables written in markdown

html markdown r r-markdown

Last synced: 28 Sep 2026

https://github.com/kortschak/arrgh

Go interface to the OpenCPU R server system

Last synced: 28 Sep 2026

https://github.com/chloroExtractorTeam/chloroExtractor

Last synced: 28 Sep 2026

https://github.com/sjspielman/phyphy

Python HyPhy: Facilitating HyPhy execution and parsing

software

Last synced: 28 Sep 2026

https://github.com/oliviergimenez/GammaGompertzCR

Fit Gamma-Gompertz model to capture-recapture data using data cloning

bayesian-inference capture-recapture data-cloning individual-heterogeneity maximum-likelihood-estimation mcmc survival

Last synced: 28 Sep 2026

https://github.com/BirolLab/xmatchview

🗻 Visualization of genome/gene sequence synteny

Last synced: 28 Sep 2026

https://github.com/bjodah/pyneqsys

Solve symbolically defined systems of non-linear equations numerically.

least-squares nonlinear-equations root-finding symbolic-manipulation sympy

Last synced: 28 Sep 2026

https://github.com/scikit-learn-contrib/category_encoders

A library of sklearn compatible categorical variable encoders

Last synced: 28 Sep 2026

https://github.com/BIOS-IMASL/chesweet

CheSweet: chemical shifts for glycans

chemical-shift glycans python

Last synced: 28 Sep 2026

https://github.com/SCIInstitute/PFEIFER

Signal processing toolbox for cardiac potential recordings.

ecg-imaging ecg-signal electrocardiography signal-processing

Last synced: 28 Sep 2026

https://github.com/ropensci/drake

An R-focused pipeline toolkit for reproducibility and high-performance computing

data-science drake high-performance-computing makefile peer-reviewed pipeline r r-package reproducibility reproducible-research ropensci rstats workflow

Last synced: 28 Sep 2026

https://github.com/neutrons/multiphonon

multiphonon (getDOS)

Last synced: 28 Sep 2026

https://github.com/tlverse/origami

:game_die: :crystal_ball: Comprehensive Cross-Validation Engine

cross-validation machine-learning

Last synced: 28 Sep 2026

https://github.com/JoshKarpel/idesolver

A general-purpose numerical integro-differential equation solver

integro-differential-equations mathematics numerical-integration python

Last synced: 28 Sep 2026

https://github.com/csu-hmc/opty

A library for using direct collocation in the optimization of dynamic systems.

collocation optimal optimal-control optimization parameter-estimation python

Last synced: 29 Sep 2026

https://github.com/boisgera/bitstream

Binary Data for Humans

binary-data bitstream python

Last synced: 28 Sep 2026

https://gitlab.com/cerfacs/batman

Statistical analysis for expensive computer codes made easy.

CFD Gaussian process LES ensemble pod polynomial chaos python surrogate model uncertainty quantification uncertainty visualization

Last synced: 28 Sep 2026

https://github.com/onecodex/finch-rs

A genomic minhashing implementation in Rust

Last synced: 28 Sep 2026

https://github.com/openscm/pymagicc

Python wrapper for the simple climate model MAGICC

climate-model magicc-model python-wrapper

Last synced: 28 Sep 2026

https://github.com/expfactory/expfactory

software to generate a reproducible container with a battery of experiments

battery container experiment-factory experiments expfactory psychology reproducible singularity

Last synced: 28 Sep 2026

https://github.com/danilofreire/prisonbrief

An R package that returns tidy data from the World Prison Brief website.

data prison rstats world-prison-brief

Last synced: 28 Sep 2026

https://github.com/neuropsychology/psycho.R

An R package for experimental psychologists

apa apa6 bayesian correlation format interpretation mixed-models neuroscience psycho psychology r rstanarm statistics

Last synced: 28 Sep 2026

https://github.com/Molmed/checkQC

CheckQC inspects the content of an Illumina runfolder and determines if it passes a set of quality criteria

genomics illumina quality-control sequencing

Last synced: 28 Sep 2026

https://github.com/dartsim/dart

Research-focused C++23 physics engine for robotics, animation, and machine learning, with Python bindings

collision-detection computer-animation cpp23 dynamics gazebo inverse-kinematics kinematics lie-group mjcf multibody nanobind physics-engine python-bindings rigidbody robotics sdf simulation urdf