https://github.com/KoesGroup/Snakemake_ChIPseq_PE
Pipeline for the analysis of PE ChIP-seq data
chip-seq-pipelines snakemake
Last synced: 22 Jun 2026
https://github.com/prmiles/pymcmcstat
Python implementation of MATLAB toolbox "mcmcstat"
adaptive-metropolis delayed-rejection markov-chain-monte-carlo mcmc metropolis-hastings python
Last synced: 23 Jun 2026
https://github.com/WMD-group/SMACT/
Python package to aid materials design and informatics
computational-chemistry machine-learning materials-design materials-informatics materials-science materials-screening python
Last synced: 22 Jun 2026
https://github.com/1313e/PRISM
An alternative to MCMC for rapid analysis of models
analysis-pipeline emulator model model-analysis python python3 regression
Last synced: 23 Jun 2026
https://github.com/MagneticParticleImaging/MPIFiles.jl
Julia Package for reading and writing MPI Files
julia mpi
Last synced: 23 Jun 2026
https://github.com/StingraySoftware/stingray
Anything can happen in the next half hour (including spectral timing made easy)!
astronomy astrophysics blackhole blackholes data-analysis fourier-analysis fourier-transform hacktoberfest neutronstars pulsars time-series time-series-analysis timeseries x-ray x-ray-binaries
Last synced: 23 Jun 2026
https://github.com/mfroeling/QMRITools
Processing and visualization tools for quantitative MRI data
bids denoising diffusion dixon dti extended-phase-graphs fasculation ivim jcoupling muscle nifti noise-suppression registration relaxometry simulation spectroscopy tractography visualization
Last synced: 23 Jun 2026
https://github.com/dahtah/imager
R package for image processing
cimg image-processing r
Last synced: 23 Jun 2026
https://github.com/nproellochs/ReinforcementLearning
This package performs model-free reinforcement learning in R.
experience-sampling r reinforcement-learning
Last synced: 23 Jun 2026
https://bitbucket.org/manuela_s/hcp/
HCP (HeatmapCovariatePlot) is an open-source Matlab package to generate publication-quality, highly customizable heatmaps annotated with continuous or categorical metadata variables.
Last synced: 22 Jun 2026
https://github.com/kgjerde/corporaexplorer
An R package for dynamic exploration of text collections
corpora corpus r shiny text-analysis
Last synced: 22 Jun 2026
https://github.com/underworldcode/stripy
2D spherical and Cartesian triangulation toolkit using tripack, stripack, srfpack and ssrfpack
fortran meshes python spherical-geometry triangulation-delaunay
Last synced: 23 Jun 2026
https://github.com/marshallward/f90nml
A Python module and command line tool for working with Fortran namelists
fortran namelist parser python
Last synced: 22 Jun 2026
https://github.com/opensim-org/SCONE
Open Source Software for Predictive Simulation of Biological Motion.
musculoskeletal-models optimization simulation tutorials
Last synced: 23 Jun 2026
https://github.com/CSBiology/FSharpGephiStreamer
F# functions for streaming any kind of graph/network data to the network visualization tool gephi
data-analysis exploratory-data-analysis fsharp gephi graph-visualization streaming-graph-data visualization
Last synced: 22 Jun 2026
https://github.com/delira-dev/delira
Lightweight framework for fast prototyping and training deep neural networks with PyTorch and TensorFlow
deep-learning delira machine-learning medical-images medical-imaging pytorch radiology tensorflow
Last synced: 23 Jun 2026
https://gitlab.com/QComms/cqptoolkit
Framework for controlling QKD devices and managing symmetric keys. See the [project page here](https://qcomms.gitlab.io/cqptoolkit/)
C++ physics quantum security
Last synced: 22 Jun 2026
https://github.com/university-of-southern-maine-physics/labjack-controller
Easily stream data from LabJack T4 and T7 devices.
data-collection labjack labjack-controller ljm python python3 streaming-data
Last synced: 22 Jun 2026
https://github.com/schuyler-smith/phylosmith/
functions for analyzing phyloseq data
Last synced: 22 Jun 2026
https://github.com/NASA-Planetary-Science/sbpy
A Python package for small bodies research
asteroids astronomy comets research
Last synced: 23 Jun 2026
https://github.com/peterjwatkins/diwanalr
diwanalr - an R package for data analysis related to diffusive-wave spectroscopy (DWS)
Last synced: 22 Jun 2026
https://github.com/connorourke/crystal_torture
crystal_torture: A crystal structure analysis code, allowing site tortuosity to be calculated.
Last synced: 23 Jun 2026
https://github.com/DrugowitschLab/VBLinLogit
Variational Bayes linear and logistic regression
linear-regression logistic-regression machine-learning variational-bayes
Last synced: 23 Jun 2026
https://github.com/fboehm/qtl2pleio
Testing pleiotropy vs. separate QTL in multiparental populations
multiparental-populations quantitative-genetics quantitative-trait
Last synced: 22 Jun 2026
https://github.com/OpenGeoVis/PVGeo
🌍 Python package of VTK-based algorithms to analyze geoscientific data and models
3d data-visualization geophysics geosciences model-building open-science paraview paraview-plugin python visual-data-integration visualization vtk
Last synced: 22 Jun 2026
https://github.com/rheiland/xml2jupyter
Generate Jupyter widgets (and a notebook) from a PhysiCell XML configuration file
Last synced: 22 Jun 2026
https://github.com/matbesancon/BilevelOptimization.jl
JuMP-based toolbox for solving bilevel optimization problems
bilevel-optimization bilevel-problem complementarity-constraints julia julialang jump mathematical-programming optimization
Last synced: 22 Jun 2026
https://github.com/Amalan-ConStat/R-fitODBOD
R package developing version of fitODBOD version 1.4.1
binomial-distribution overdispersion
Last synced: 23 Jun 2026
https://github.com/fsobral/RAFF.jl
Robust Algebraic Fitting Function project
julia-package lower-order-value-optimization model-adjustment optimization-algorithms
Last synced: 22 Jun 2026
https://github.com/ropensci/cde
Repo for R package to query and download WFD data from the EA Catchment Data Explorer site
Last synced: 23 Jun 2026
https://github.com/xoolive/traffic
A toolbox for processing and analysing air traffic data
adsb air-traffic-data data-analytics data-science data-visualisation declarative-pipeline mode-s trajectory
Last synced: 23 Jun 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: 23 Jun 2026
https://github.com/hainegroup/oceanspy
A Python package to facilitate ocean model data analysis and visualization.
ocean oceanography physical-oceanography
Last synced: 23 Jun 2026
https://bitbucket.org/basicsums/basicsums
The basicsums package provides an object-oriented programming interface for computing basic sums.
Last synced: 22 Jun 2026
https://github.com/USCbiostats/slurmR
slurmR: A Lightweight Wrapper for Slurm
bioinformatics hpc rpackage rstats slurm
Last synced: 23 Jun 2026
https://github.com/USCbiostats/fmcmc
A friendly MCMC framework
adaptive bayesian-inference markov-chain-monte-carlo mcmc metropolis-hastings parallel-computing r r-package
Last synced: 23 Jun 2026
https://github.com/Boyle-Lab/CGIMP
Clustered Genomic Interval Mapping Platform
Last synced: 23 Jun 2026
https://github.com/olivertomic/hoggorm
Explorative multivariate statistics in Python
chemometrics explorative-statistics multivariate-analysis multivariate-statistics partial-least-squares-regression principal-component-analysis statistics
Last synced: 23 Jun 2026
https://github.com/ECRL/ecabc
Artificial Bee Colony for generic feature tuning
artificial-bee-colony feature-tuning hyperparameter-optimization neural-network
Last synced: 23 Jun 2026
https://github.com/IBT-FMI/COSplay/
Contrast Optimized Stimulation player
bids biomedical optogenetics sensory-stimulation stimulus-presentation trigger-events
Last synced: 23 Jun 2026
https://github.com/stumpy-dev/stumpy
STUMPY is a powerful and scalable Python library for modern time series analysis
anomaly-detection dask data-science matrix-profile motif-discovery numba pattern-matching pydata python time-series-analysis time-series-data-mining time-series-segmentation
Last synced: 23 Jun 2026
https://github.com/xin-huang/SeleDiff
A fast and scalable tool for estimating and testing selection differences between populations
natural-selection population-genomics selective-pressures
Last synced: 23 Jun 2026
https://github.com/nvihrs14/tcherry
This R-package is for learning the structure of the type of graphical models called t-cherry trees from data. The structure is determined either directly from data or by increasing the order of a lower order t-cherry tree.
chow-liu-tree graphical-models junction-tree markov-networks structure-learning t-cherry-tree undirected-graph variable-dependence
Last synced: 22 Jun 2026
https://github.com/emsig/emg3d
A multigrid solver for 3D electromagnetic diffusion
csem electromagnetic geophysics modelling multigrid python
Last synced: 23 Jun 2026
https://gitlab.com/users/sign_in
Custom ROS packages for prototyping with [Toposens](http://toposens.com/) 3D ultrasound sensors. Supported for Noetic, Melodic and Kinetic with [TS3](http://toposens.com/ts3) hardware.
open source robotics ros
Last synced: 22 Jun 2026
https://github.com/Geodels/bioLEC
Landscape Elevational Connectivity package https://biolec.readthedocs.io/
Last synced: 23 Jun 2026
https://github.com/zhangning737/rdbsp
Dynamic rock behaviour simulation program
Last synced: 23 Jun 2026
https://github.com/mmhs013/pyMannKendall
A python package for non parametric Mann Kendall family of trend tests.
mann-kendall-tests mk-test modified-mann-kendall-test python seasonal-mann-kendall trend-analysis
Last synced: 23 Jun 2026
https://github.com/big-data-lab-team/OrpailleCC
A consistent collection of data stream algorithms for embedded systems
Last synced: 23 Jun 2026
https://github.com/pierrepo/autoclasswrapper
AutoClassWrapper: a Python :snake: wrapper for AutoClass C classification :package: :rocket:
Last synced: 23 Jun 2026
https://github.com/vivo-project/VIVO
VIVO is an extensible semantic web application for research discovery and showcasing scholarly work
Last synced: 23 Jun 2026
https://github.com/brmather/pycurious
Python package for computing the Curie depth from the magnetic anomaly
bayesian-inference curie-depth magnetic-anomaly magnetism python
Last synced: 23 Jun 2026
https://github.com/terrytangyuan/lfda/
Local Fisher Discriminant Analysis in R
dimensionality-reduction distance-metric-learning machine-learning metric-learning r statistics
Last synced: 23 Jun 2026
https://github.com/silvandeleemput/memcnn
PyTorch Framework for Developing Memory Efficient Deep Invertible Networks
deep-learning machine-learning python3 pytorch
Last synced: 23 Jun 2026
https://github.com/fcdimitr/sgtsnepi
Swift Neighbor Embedding of Sparse Stochastic Graphs
Last synced: 23 Jun 2026
https://github.com/urmi-21/ORIS
ORIS: An interactive software tool for prediction of replication origin in prokaryotic genomes
bioinformatics dna-replication gc-skew oris replication-origin
Last synced: 23 Jun 2026
https://github.com/bii-absd/tims
TIMS (Translation Informatics Management System) is an software effort by the ABSD (Analytics of Biological Sequence Data) team in the Bioinformatics Institute (BII), Agency of Science, Technology and Research (A*STAR), Singapore.
Last synced: 23 Jun 2026
https://github.com/camdavidsonpilon/lifelines
Survival analysis in Python
cox-regression data-science maximum-likelihood python reliability-analysis statistics survival-analysis
Last synced: 23 Jun 2026
https://github.com/ropensci/UCSCXenaTools
:package: An R package for accessing genomics data from UCSC Xena platform, from cancer multi-omics to single-cell RNA-seq https://cran.r-project.org/web/packages/UCSCXenaTools/
api-client bioinformatics ccle downloader icgc r tcga toil treehouse ucsc ucsc-xena
Last synced: 23 Jun 2026
https://github.com/beringresearch/ivis
Dimensionality reduction in very large datasets using Siamese Networks
data-visualization dimensionality-reduction machine-learning neural-network siamese-neural-network
Last synced: 23 Jun 2026
https://github.com/ryanstwrt/FRIDGe
This repository is for the Fast Reactor Input Deck Generator (FRIDGe)
Last synced: 23 Jun 2026
https://gitlab.com/dlr-dw/ontocode
Python package for ontology-to-code transformation
Last synced: 23 Jun 2026
https://github.com/CROSSINGTUD/bc-hybrid-certificates
Java implementation of hybrid certificates using BouncyCastle
Last synced: 23 Jun 2026
https://github.com/greta-dev/greta
simple and scalable statistical modelling in R
Last synced: 23 Jun 2026
https://github.com/bids-standard/pybids
Python tools for querying and manipulating BIDS datasets.
api bids python
Last synced: 23 Jun 2026
https://github.com/dblarremore/webweb
MATLAB and Python + d3js. Webweb is a tool for creating interactive visualizations of networks on the web.
Last synced: 23 Jun 2026
https://github.com/pankajkmishra/NodeLab
NodeLab is a simple MATLAB-repository for node-generation and adaptive refinement for testing, and implementing various meshfree methods (including physics-informed neural networks, PINNs and DeepOnet) for solving PDEs in arbitrary domains.
deeponet fno meshfree-solver physics-informed-neural-networks
Last synced: 23 Jun 2026
https://github.com/adswa/multimatch_gaze
Reimplementation of Matlabs MultiMatch toolbox (Dewhurst et al., 2012) in Python
Last synced: 23 Jun 2026
https://github.com/bihealth/altamisa
AltamISA: a Python API for ISA-Tab files
bioinformatics isa isa-tab
Last synced: 23 Jun 2026
https://github.com/sunpy/drms
Access HMI, AIA and MDI data with Python from public JSOC DRMS servers
Last synced: 23 Jun 2026
https://github.com/Merck/rtdpy
Residence Time Distribution modeling in Python.
process-development python residence-time-distribution
Last synced: 23 Jun 2026
https://github.com/frycast/studentlife
Tidy handling and navigation of the valuable Student-Life mHealth dataset
Last synced: 23 Jun 2026
https://github.com/o2r-project/containerit/
Package an R workspace and all dependencies as a Docker container
docker dockerfile r reproducible-research reproducible-science
Last synced: 23 Jun 2026
https://github.com/fauvernierma/survPen
hazard and excess hazard modelling with multidimensional penalized splines
Last synced: 23 Jun 2026
https://github.com/jlustigy/coronagraph
A Python noise model for directly imaging exoplanets
astronomy coronagraph exoplanets spectroscopy
Last synced: 23 Jun 2026
https://github.com/dap-biospec/KinESim
Igor Pro package for simulation of homogeneous and heterogeneous electrochemical reactions
Last synced: 23 Jun 2026
https://gitlab.com/eidheim/Simple-Web-Server
A very simple, fast, multithreaded, platform independent HTTP and HTTPS server and client library implemented using C++11 and Boost.Asio. Created to be an easy way to make REST resources available from C++ applications.
Last synced: 22 Jun 2026
https://github.com/singularityhub/singularity-compose
orchestration for singularity containers (under development)
container-orchestration singularity singularity-compose
Last synced: 23 Jun 2026
https://github.com/Samsung/mTower
mTower is Trusted Execution Environment specially designed to be used on MicroController Units (MCUs) supporting ARM TrustZone technology (e.g., Cortex-M23/33/35p). mTower operates well under restrictions typical for such environment – small RAM and ROM sizes, relatively low performance, absence of rich OSes providing variety of services available on PCs or in enterprise environments. mTower is intended for usage in IoT, embedded devices, Smart Home applications, distributed heterogeneous networks and other environments where secure processing of sensitive data is necessary.
bootloader cortex-m23 freertos gcc iot m2351 makefile microcontroller numaker-pfm-m2351 nuvoton risc-v secure smarthome trusted-execution-environment trustzone
Last synced: 23 Jun 2026
https://github.com/dap-biospec/G3F
G3F: Global, Multidimensional Spectral Regression Analysis
Last synced: 23 Jun 2026
https://github.com/ShanaScogin/modeLLtest
An R Package for tests comparing cross validated log likelihood (CVLL) estimates
Last synced: 23 Jun 2026
https://github.com/profjsb/deepCR
Deep Learning Based Cosmic Ray Removal for Astronomical Images
astronomical-images astronomy convolutional-neural-networks deep-learning python3 pytorch
Last synced: 23 Jun 2026
https://github.com/Cavenfish/autogamess
This is a python module for automating Raman calculations using GAMESS(us).
Last synced: 23 Jun 2026
https://github.com/maxibor/sourcepredict
Prediction/source tracking of metagenomic samples source using machine learning
machine-learning microbiome source-tracking
Last synced: 23 Jun 2026
https://github.com/daya6489/SmartEDA
a R package for data exploratory analysis
analysis exploratory-data-analysis
Last synced: 23 Jun 2026
https://github.com/CLINDA-AAU/ccostr
An R package, ccostr, which calculates estimates of mean cost given censored data
Last synced: 23 Jun 2026
https://github.com/holgerteichgraeber/TimeSeriesClustering.jl
Julia implementation of unsupervised learning methods for time series datasets. It provides functionality for clustering and aggregating, detecting motifs, and quantifying similarity between time series datasets.
clustering energy-systems hierarchical-clustering julia k-means-clustering k-medoids-clustering optimization representative-days time-series-aggregation
Last synced: 23 Jun 2026
https://github.com/Niemeyer-Research-Group/pyMARS
Python-based (chemical kinetic) Model Automatic Reduction Software
Last synced: 23 Jun 2026
https://github.com/sigsep/open-unmix-paper-joss
Repository for the open-unmix JOSS submission
Last synced: 23 Jun 2026
https://github.com/livioivil/TextWiller
Collection of functions for text mining, specially devoted to the italian language
Last synced: 23 Jun 2026
https://github.com/WRF-CMake/WRF
🌀 The Weather Research and Forecasting (WRF) model with CMake support
atmospheric-modelling atmospheric-science cmake fortran grib hpc hpc-applications linux macos meteorology netcdf numerical-modelling nwp research scientific-computations scientific-computing weather weather-forecast windows wrf
Last synced: 23 Jun 2026
https://github.com/PlanetFormationLab/gofish
🎣 Fish for line detections by exploiting the known velocity structure of the disk.
Last synced: 23 Jun 2026
https://github.com/martibosch/swisslandstats-geopy
Python tools for preprocessing geodata from the Swiss Federal Statistical Office
Last synced: 23 Jun 2026
https://github.com/RuthAngus/stardate
Combining dating methods for better stellar ages
age-rotation-relations ages astronomy astrophysics bayesian field-stars gyrochronology hierarchical inference isochrone-fitting isochrones mcmc rotation stars stellar stellar-ages stellar-parameters stellar-rotation
Last synced: 23 Jun 2026
https://github.com/HBClab/NiBetaSeries
Nipype implementation of BetaSeries Correlations (Beta)
Last synced: 23 Jun 2026
https://github.com/giorginolab/vmd_diffusion_coefficient
Computing Diffusion Coefficients in Macromolecular Simulations: The Diffusion Coefficient Tool for VMD
Last synced: 23 Jun 2026
https://github.com/haptork/csaransh
Study, Explore and Visualize Collision Cascades
Last synced: 23 Jun 2026
