GitHub
https://github.com/benjaminwehnert1008/deepmutscan
nf-core/deepmutscan is a reproducible, scalable, and community-curated pipeline for analyzing deep mutational scanning (DMS) data using shotgun DNA sequencing.
graphfragments.jl
Implementation of Graph Fragmentation in serial and in parallel.
https://github.com/bgeedb/bgee_pipeline
Source code of the Bgee pipeline used to build the Bgee database
trapi-predict-kit
🧰 A package to help create and deploy Translator Reasoner APIs (TRAPI) from any prediction model exposed as a regular python function.
superdrops-in-action
Various plotting scripts and applications of CLEO superdroplet model
distilabel
Distilabel is a framework for synthetic data and AI feedback for engineers who need fast, reliable and scalable pipelines based on verified research papers.
terraform-aws-secretsmanager-for-provider-secrets
A _coupled_ pattern for sourcing provider secrets from AWS SecretsManager
sharetraitdatabase
ShareTrait Database — a relational SQL database providing a structured implementation of the ShareTrait data. It includes the full schema definition, data tables and supporting documentation.
2017-10-19-universitybotswana
This is a repository for the Software Carpentry workshop that will take place from 19 - 20 October at the University of Botswana
avoiding-collinearity
Code and tests for determining an upper bound on the number of collinear points in an infinite walk on a finite set of vectors in Z^3.
pylaserpulse
A simulation toolbox for modelling laser pulse propagation through nonlinear, dispersive, active, and passive optical fibre systems in python.
stats-strided-dsnanmeanpn
Calculate the arithmetic mean of a single-precision floating-point strided array, ignoring NaN values, using a two-pass error correction algorithm with extended accumulation, and returning an extended precision result.
stats-strided-meanors
Calculate the arithmetic mean of a strided array using ordinary recursive summation.
synthnn
A Python package for estimating treatment effects using Synthetic Nearest Neighbors
2025-05-27-uw
Website for the Software Carpentry Workshop at the University of Washington on May 27–30, 2025.
mhd-2d-sphere
These Python scripts support the findings of our study, Nakashima & Yoshida (2024).
runtime-info-es
An ECMAScript (JavaScript & TypeScript) module for runtime information.
keploy
Unit, API & Integration Testing Agent for Developers. Generate tests, mocks/stubs for your APIs that actually work!
Pore2Chip
Pore2Chip: All-in-one python tool for soil microstructure analysis and micromodel design - Published in JOSS (2025)
minify-bibtex.sh
A tool to shorten author, editor, journal, and booktitle in a BibTeX file.
spinefe-benchmark
Code and instructions to reproduce the analyses from our study comparing linear and nonlinear finite element models of vertebral strength across the thoracic and lumbar spine using the VERSE19 dataset. Includes image data, results and visualization scripts to support full reproducibility.
enviroatlas_v4
EnvrioAtlas migration to JS4. Easy to use, interactive mapping application to access hundreds of maps showing environmental data
nf1_schwann_cell_morphology_signature
This repository contains all the modules to split and train a binary classification model to predict NF1 null and wildtype genotype.
vqe-ising
Implementing the quantum algorithms Variational Quantum Eigensolver (VQE) and Quantum Approximate Optimization Algorithm (QAOA) for a Vanderbilt University CS 8395 Special Topics - Intro to Quantum Computing final project.
ylac-2024-session
A slide deck on "Translating Research into Action" presented during the YLAC's Yound Researchers for Social Impact Program 2024
sns-ext
Minerva version for Seq-N-Slide pipeline (https://github.com/igordot/sns)
SSAPy - Space Situational Awareness for Python
SSAPy - Space Situational Awareness for Python - Published in JOSS (2025)
Tesseract Core
Tesseract Core: Universal, autodiff-native software components for Simulation Intelligence - Published in JOSS (2025)
citation-network-app
An interactive web app that fetches the top 20 related papers from Google Scholar (via SerpAPI), builds a citation graph, and renders it in pages of 10 nodes each.
DVMDOSTEM v0.8.3
DVMDOSTEM v0.8.3: a terrestrial ecosystem model designed to represent arctic, boreal and permafrost ecosystem dynamics - Published in JOSS (2025)
clowder
A data management system that allows users to share, annotate, organize and analyze large collections of datasets. It provides support for extensible metadata annotation using JSON-LD and a distribute analytics event bus for automatic curation of uploaded data.
ustat-var
Python package for computing unbiased variances and sampling variances of teacher means.
GBNet
GBNet: Gradient Boosting packages integrated into PyTorch - Published in JOSS (2025)
cuisto
cuisto: A Python package to quantify neurohistological data from QuPath and ABBA - Published in JOSS (2025)
AirFogSim
AirFogSim: A Python Package for Benchmarking Collaborative Intelligence in Low-Altitude Vehicular Fog Computing - Published in JOSS (2025)
SwiftPol
SwiftPol: A Python package for building and parameterizing in silico polymer systems - Published in JOSS (2025)
CompressedBeliefMDPs.jl
CompressedBeliefMDPs.jl: A Julia Package for Solving Large POMDPs with Belief Compression - Published in JOSS (2025)
WunDeeDB.jl
WunDeeDB.jl: An easy to use, zero config, WAL, SQLite backend vector database - Published in JOSS (2025)
LMDiskANN.jl
LMDiskANN.jl: An Implementation of the Low Memory Disk Approximate Nearest Neighbors Search Algorithm - Published in JOSS (2025)
fenicsr13
A Tensorial Mixed Finite Element Solver for the Linear R13 Equations Using the FEniCS Computing Platform (Mirror from https://git.rwth-aachen.de/lamBOO/fenicsR13).
FRAGMENT-MNP
FRAGMENT-MNP: A model of micro- and nanoplastic fragmentation in the environment - Published in JOSS (2025)
pcmdi_metrics
Open-source Python package for Systematic Evaluation of Climate and Earth System Models
pytseb
A python Two Source Energy Balance model for estimation of evapotranspiration with remote sensing data
