GitHub
cellsamsegmentation-pluripotent-differentiation
Perform CellSAM segmentation interactively
ldtr
R package to implement the Landscape Dynamic Typology (LDT) method developed by Machado et al. 2018. The main purpose is to assess land use / land cover changes between several moments.
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.
noveltree
NovelTree is a highly parallelized and computationally efficient phylogenomic workflow that infers gene families, gene family trees, species trees, and gene family evolutionary history.
rad_assembler
Nextflow pipeline for Reference Assisted De novo assembling whole genome shotgun sequenced viruses.
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
gov.nasa.pds:mi-label
Metadata Injector for PDS Labels (MILabel) provides a command-line interface for generating PDS4 Labels using a user provided PDS4 XML template and input (source) data products.
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
candipore
Candida auris Variant calling workflow for both long and short reads (+parabricks)
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.
optitrack_broadcast
(FSC lab) calculate rigid-body velocity based on position stream from vrpn
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).
dh_yvonne_n
An incomplete collection of Christopher Moore books, from my own library.
runtime-info-es
An ECMAScript (JavaScript & TypeScript) module for runtime information.
stringerrunouttopopt
Code and results for the manuscript "Topology optimisation methodology for robust design of large composite structures"
keploy
Unit, API & Integration Testing Agent for Developers. Generate tests, mocks/stubs for your APIs that actually work!
voice-based-emotion-recognition-using-ai-and-speech-processing
A deep learning project that detects human emotions from audio using MFCC feature extraction and a neural network classifier. Built using Python and TensorFlow, this tool leverages speech signal processing to predict emotions like happy, angry, or sad, helping machines better understand human sentiment.
ml-lifecycle-visualization
Machine learning lifecycle visualization providing a checklist for steps necessary in a machine learning project
Pore2Chip
Pore2Chip: All-in-one python tool for soil microstructure analysis and micromodel design - Published in JOSS (2025)
commonsensevision
Open-world object detection using YOLOv8 + CLIP + LLaVA + GPT-based trait reasoning to detect objects based on intent and scene context.
mde-presentation-egu2023
Presentation on the Model Data Explorer at EGU 2023 in Vienna
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)
