https://github.com/lamastex/2022-mastersthesis-ammaraldhahyani • Science 13%

masters thesis

https://github.com/lamastex/coursepaths • Science 10%

course pathways

https://github.com/lamastex/jpautogradercomps • Science 13%

This is a repository for various components developed around semi/auto-grading a jupyter .ipynb notebook

https://github.com/lamastex/hawkesprocessesonmedia • Science 13%

Master's thesis of Alfred Lindstr\"om, Mathematics, Uppsala University, 2021 (exjobb of Combient Mix AB)

https://github.com/lamastex/2023-mastersthesis-axelsandstedt • Science 13%

Axel Sandstedt's Masters thesis

https://github.com/lamastex/spark-trend-calculus • Science 26%

To detect trends in time series using Andrew Morgan's trend calculus algorithms in Apache Spark and Scala from Antoine Amend's initial implementation

https://github.com/lamastex/scadamale • Science 26%

Scalable Data Science and Distributed Machine Learning Course Book written by Raazesh Sainudiin and his WASP AI-Track PhD Students

https://github.com/lczech/pool-seq-pop-gen-stats • Science 26%

https://github.com/lczech/come_2017 • Science 13%

Some sample files for the CoME2017 course to play around with.

https://github.com/lczech/ratatosk • Science 13%

Snakemake pipeline for phylogenetic placement of metagenomic sequences

https://github.com/lczech/grenepilot-paper • Science 36%

Scripts and analyses for the GrENE-net pilot dataset

https://github.com/lczech/grenedalf-paper • Science 26%

Code for tests and benchmarks of our paper on grenedalf

https://github.com/lesofger/horse_ascii • Science 26%

https://github.com/lesofger/pizza-palace1 • Science 26%

https://github.com/lesofger/telegram_bot_adb_checker • Science 26%

https://github.com/lesunb/diagnosis • Science 10%

Diagnosis

https://github.com/lesunb/morse_simulation • Science 13%

https://github.com/lesunb/jss-2022-replication-package • Science 10%

Replication package of the paper titled "An Architecture for Mission Coordination of Heterogeneous Robots"

https://github.com/lesunb/ais_bsn • Science 13%

https://github.com/lesunb/bsn_seams24 • Science 23%

Body Sensor Network (BSN): a prototype for exercising dependable adaptation in healthcare domain.

https://github.com/lesunb/bsn_rome_24 • Science 23%

Body Sensor Network (BSN): a prototype for exercising dependable adaptation in healthcare domain.

https://github.com/lesunb/implied_scenarios • Science 13%

Relevant files used for the project 'Characterization of Implied Scenarios as Families of Common Behavior'.

https://github.com/linux-cpp-lisp/e3nn-jax • Science 23%

https://github.com/linux-cpp-lisp/pytorch_geometric • Science 23%

Geometric Deep Learning Extension Library for PyTorch

https://github.com/linux-cpp-lisp/opt_einsum • Science 23%

⚡️Optimizing einsum functions in NumPy, Tensorflow, Dask, and more with contraction order optimization.

https://github.com/linux-cpp-lisp/litmatter • Science 10%

Rapid experimentation and scaling of deep learning models on molecular and crystal graphs.

pyOMA2: A Python module for conducting operational modal analysis • Science 93%

pyOMA2: A Python module for conducting operational modal analysis - Published in JOSS (2025)

tmmax • Science 67%

A fast transfer matrix method written in jax for modelling optical multilayer thin films

bamojax • Science 67%

Bayesian Modelling using Jax

NonSysId: Nonlinear System Identification with Improved Model Term Selection for NARMAX Models • Science 93%

NonSysId: Nonlinear System Identification with Improved Model Term Selection for NARMAX Models - Published in JOSS (2025)

THz Image Explorer - An Interactive Cross-Platform Open-Source THz Image Analysis Tool • Science 93%

THz Image Explorer - An Interactive Cross-Platform Open-Source THz Image Analysis Tool - Published in JOSS (2025)

phylo2vec • Science 67%

Phylo2Vec: a vector representation for binary trees

PyDrugLogics: A Python Package for Predicting Drug Synergies Using Boolean Models • Science 93%

PyDrugLogics: A Python Package for Predicting Drug Synergies Using Boolean Models - Published in JOSS (2025)

MetaSpread: A cancer growth and metastatic spread simulation program in Python • Science 93%

MetaSpread: A cancer growth and metastatic spread simulation program in Python - Published in JOSS (2025)

mlr3extralearners: Expanding the mlr3 Ecosystem with Community-Driven Learner Integration • Science 95%

mlr3extralearners: Expanding the mlr3 Ecosystem with Community-Driven Learner Integration - Published in JOSS (2025)

deepinv • Science 54%

DeepInverse: a PyTorch library for solving imaging inverse problems using deep learning

mlgidGUI - an annotation program for 2D scattering data • Science 93%

mlgidGUI - an annotation program for 2D scattering data - Published in JOSS (2025)

STON: SofTware for petrOgraphic visualisatioN • Science 87%

STON: SofTware for petrOgraphic visualisatioN - Published in JOSS (2025)

optimeo • Science 67%

OPTIMEO is a package doubled by a web application that helps you optimize your experimental process by generating a Design of Experiment, generating new experiments using Bayesian Optimization (BO), and analyzing the results of your experiments using Machine Learning models.

PathFinder: A Matlab/Octave package for oscillatory integration • Science 93%

PathFinder: A Matlab/Octave package for oscillatory integration - Published in JOSS (2025)

NeuroCAPs — Peer-reviewed • Science 93%

NeuroCAPs: A Python Package for Performing Co-Activation Patterns Analyses on Resting-State and Task-Based fMRI Data - Published in JOSS (2025)

ActiSleep Tracker — Peer-reviewed • Science 93%

ActiSleep Tracker: a Python-based dashboard for adjusting automatic sleep predictions of actigraphy data - Published in JOSS (2025)

HINA — Peer-reviewed • Science 98%

HINA: A Learning Analytics Tool for Heterogenous Interaction Network Analysis in Python - Published in JOSS (2025)

calzone-tool • Science 44%

Evaluating the Calibration of Probabilistic Models

PANKH: An unsteady potential flow solver for hovering airfoils • Science 93%

PANKH: An unsteady potential flow solver for hovering airfoils - Published in JOSS (2025)

elasticipy • Science 49%

A python toolkit to perform common tensor operations in Continuum Mechanics

eitprocessing • Science 44%

Software for electrical impedance tomography data loading, visualization and processing

sata • Science 67%

opensim-creator • Science 49%

A UI for building OpenSim models

PyMetric: A Geometry Informed Array Mathematics Package • Science 87%

PyMetric: A Geometry Informed Array Mathematics Package - Published in JOSS (2026)

SPAC: A Python Package for Spatial Single-Cell Analysis of Multiplexed Imaging • Science 87%

SPAC: A Python Package for Spatial Single-Cell Analysis of Multiplexed Imaging - Published in JOSS (2026)

pyforce: Python Framework for data-driven model Order Reduction of multi-physiCs problEms • Science 87%

pyforce: Python Framework for data-driven model Order Reduction of multi-physiCs problEms - Published in JOSS (2026)

vkcompviz • Science 44%

Vulkan image and data processing framework capable of running a cascade of compute shaders and displaying or storing the result.

constrainthg • Science 67%

General system simulation using constraint hypergraphs

itwinai • Science 44%

Advanced AI workflows for scientific digital twins

hermes-rheo • Science 49%

Python package designed to complement and extend the piblin library, offering a set of transforms tailored for analysis of rheological data

SatRbedo: An R package for retrieving snow and ice albedo from optical satellite imagery • Science 87%

SatRbedo: An R package for retrieving snow and ice albedo from optical satellite imagery - Published in JOSS (2026)

torch_blue: A Flexible Python Package for Bayesian Neural Networks in PyTorch • Science 87%

torch_blue: A Flexible Python Package for Bayesian Neural Networks in PyTorch - Published in JOSS (2026)

https://github.com/spectralmatch/spectralmatch • Science 49%

Relative radiometric normalization toolkit for raster mosaics and time series

FAIRmaterials: Ontology Tools with Data FAIRification in Development • Science 87%

FAIRmaterials: Ontology Tools with Data FAIRification in Development - Published in JOSS (2026)

tools4rdf • Science 44%

Collection of tools for working with RDF data

$\mathcal{H}$-HIGNN Toolkit: A Software for Efficient and Scalable Simulation of Large-Scale Particulate Suspensions Using GNNs and $\mathcal{H}$-Matrices • Science 90%

$\mathcal{H}$-HIGNN Toolkit: A Software for Efficient and Scalable Simulation of Large-Scale Particulate Suspensions Using GNNs and $\mathcal{H}$-Matrices - Published in JOSS (2026)

aiida-aimall: A Python package for automating workflows for AIMAll software • Science 87%

aiida-aimall: A Python package for automating workflows for AIMAll software - Published in JOSS (2026)

OnlinePCA.jl: A Julia Package for Out-of-core and Sparse Principal Component Analysis • Science 87%

OnlinePCA.jl: A Julia Package for Out-of-core and Sparse Principal Component Analysis - Published in JOSS (2026)

OnlineNMF.jl: A Julia Package for Out-of-core and Sparse Non-negative Matrix Factorization • Science 87%

OnlineNMF.jl: A Julia Package for Out-of-core and Sparse Non-negative Matrix Factorization - Published in JOSS (2026)

Reyna: A minimal overhead polytopal discontinuous Galerkin finite element library • Science 87%

Reyna: A minimal overhead polytopal discontinuous Galerkin finite element library - Published in JOSS (2026)

A Python API for OTTER • Science 87%

A Python API for OTTER - Published in JOSS (2026)

c3dr • Science 67%

Read and write C3D motion capture data in R

rydiqule • Science 75%

Rydberg Sensor Interactive Quantum Physics Module

MieSimulatorGUI: A user-friendly tool to compute and visualize light scattering by spherical dielectric particles • Science 87%

MieSimulatorGUI: A user-friendly tool to compute and visualize light scattering by spherical dielectric particles - Published in JOSS (2026)

Dyad: a binary-star dynamics and statistics library for Python • Science 87%

Dyad: a binary-star dynamics and statistics library for Python - Published in JOSS (2026)

pyfive: A pure-Python HDF5 reader • Science 92%

pyfive: A pure-Python HDF5 reader - Published in JOSS (2026)

r.earthworks • Science 67%

An add-on tool for computational terrain modeling in GRASS

BiGSTARS.jl: A Julia package for bi-global stability analysis for rotating stratified flows • Science 87%

BiGSTARS.jl: A Julia package for bi-global stability analysis for rotating stratified flows - Published in JOSS (2026)

regularizedoptimization.jl • Science 67%

Algorithms for regularized optimization

anvay: A Web-based Tool for Interpretive Topic Modelling in Bengali • Science 87%

anvay: A Web-based Tool for Interpretive Topic Modelling in Bengali - Published in JOSS (2026)

Htool-DDM: A C++ library for parallel solvers and compressed linear systems. • Science 92%

Htool-DDM: A C++ library for parallel solvers and compressed linear systems. - Published in JOSS (2026)

KinOpt: A Python package for chemical kinetics analysis and optimization • Science 87%

KinOpt: A Python package for chemical kinetics analysis and optimization - Published in JOSS (2026)

FluxOptics.jl: A Differentiable Wave Optics Framework for Inverse Design in Julia • Science 87%

FluxOptics.jl: A Differentiable Wave Optics Framework for Inverse Design in Julia - Published in JOSS (2026)

Graphorge: An open-source forge of graph neural networks • Science 87%

Graphorge: An open-source forge of graph neural networks - Published in JOSS (2026)

tangram, an open platform for modular, real-time air traffic management research • Science 96%

tangram, an open platform for modular, real-time air traffic management research - Published in JOSS (2025)

powerfactory-tools • Science 75%

A Python toolbox for the (external) control of DIgSILENT PowerFactory.

rmcmc • Science 57%

Robust Markov chain Monte Carlo methods in R

datatidy24sta5069z • Science 44%

Tidy data for analysis for STA5069Z course

xr_fresh: Automated Time Series Feature Extraction for Remote Sensing & Gridded Data • Science 93%

xr_fresh: Automated Time Series Feature Extraction for Remote Sensing & Gridded Data - Published in JOSS (2025)

SpectralUnmixing • Science 44%

Spectral unmixing, oriented towards imaging spectroscopy data. Lots of flavors included.

MujocoROS2Control: Seamless MuJoCo Integration with ROS 2 for Robot Simulation and Control • Science 87%

MujocoROS2Control: Seamless MuJoCo Integration with ROS 2 for Robot Simulation and Control - Published in JOSS (2025)

MatrixBandwidth • Science 44%

Fast algorithms for matrix bandwidth minimization and matrix bandwidth recognition in Julia.

WorMe: A user-oriented software for <em>Caenorhabditis elegans</em> length determination • Science 87%

WorMe: A user-oriented software for <em>Caenorhabditis elegans</em> length determination - Published in JOSS (2025)

molify: Molecular Structure Interface • Science 87%

molify: Molecular Structure Interface - Published in JOSS (2025)

dispersiveshallowwater.jl • Science 67%

A Julia library of structure-preserving numerical methods for dispersive wave equations

grepq — Peer-reviewed • Science 98%

grepq: A Rust application that quickly filters FASTQ files by matching sequences to a set of regular expressions - Published in JOSS (2025)

gibbonNetR — Peer-reviewed • Science 93%

gibbonNetR: an R Package for the Use of Convolutional Neural Networks for Automated Detection of Acoustic Data - Published in JOSS (2025)

gtexr — Peer-reviewed • Science 98%

gtexr: A convenient R interface to the Genotype-Tissue Expression (GTEx) Portal API - Published in JOSS (2025)

gtk-fortran — Peer-reviewed • Science 54%

gtk-fortran: a GTK+ binding to build Graphical User Interfaces in Fortran - Published in JOSS (2019)

portalcasting — Peer-reviewed • Science 59%

portalcasting: Supporting automated forecasting of rodent populations - Published in JOSS (2022)

Unishox — Peer-reviewed • Science 98%

Unishox: A hybrid encoder for Short Unicode Strings - Published in JOSS (2022)

dataaimsr — Peer-reviewed • Science 93%

dataaimsr: An R Client for the Australian Institute of Marine Science Data Platform API which provides easy access to AIMS Data Platform - Published in JOSS (2021)

chirps — Peer-reviewed • Science 93%

chirps: API Client for the CHIRPS Precipitation Data in R - Published in JOSS (2020)

iheatmapr — Peer-reviewed • Science 95%

iheatmapr: Interactive complex heatmaps in R - Published in JOSS (2017)