Repositories list

• easybuild-easyconfigs

  Public
  A collection of easyconfig files that describe which software to build using which build options with EasyBuild.

  Python

  •

  GNU General Public License v2.0

  •746•3•0•0•Updated Jul 31, 2025Jul 31, 2025

• ds-package-creator

  Public
  Split a R package into a "client" and "server" version , datashield ready.

  R

  •

  GNU General Public License v3.0

  •0•0•0•0•Updated Jul 31, 2025Jul 31, 2025

• sib-software-stack

  Public
  Scripts and documentation to deploy the SIB software stack

  Perl

  •0•1•0•0•Updated Jul 31, 2025Jul 31, 2025

• glittr-stats

  Public
  General statistics of Glittr.org. Comes with the manuscript.

  PostScript

  •0•2•0•0•Updated Jul 31, 2025Jul 31, 2025

• training-cookbook

  Public
  Other

  •0•0•3•0•Updated Jul 31, 2025Jul 31, 2025

• sparql-llm

  Public
  🦜✨ Chat system and reusable components to improve LLMs capabilities when generating SPARQL queries

  sparqlsparql-query-builderexpasy+ 1llm

  Jupyter Notebook

  •

  MIT License

  •8•51•2•0•Updated Jul 30, 2025Jul 30, 2025

• single-cell-training

  Public
  SIB course on single cell transcriptomics by mostly using the Seurat pipeline

  bioinformaticstutorialrna-seq+ 3courseteachingsingle-cell

  R

  •

  Creative Commons Attribution 4.0 International

  •40•84•2•0•Updated Jul 30, 2025Jul 30, 2025

• EPD

  Public
  The Eukaryotic Promoter Database (EPD) website

  promoterstranscription-start-siteeukaryotic+ 1eukaryotic-transcription-signal

  JavaScript

  •

  GNU General Public License v3.0

  •0•0•0•0•Updated Jul 30, 2025Jul 30, 2025

• sparql-examples

  Public
  A set of SPARQL examples that are used in different SIB resources

  HTML

  •

  Other

  •22•20•7•7•Updated Jul 30, 2025Jul 30, 2025

• advanced-statistics

  Public
  Webpage for SIB's advanced statistics course

  Other

  •5•9•0•0•Updated Jul 28, 2025Jul 28, 2025

• single-cell-python-training

  Public
  HTML

  •

  Creative Commons Attribution 4.0 International

  •1•4•0•0•Updated Jul 27, 2025Jul 27, 2025

• spatial-transcriptomics-training

  Public
  R

  •

  Creative Commons Attribution 4.0 International

  •2•4•1•0•Updated Jul 27, 2025Jul 27, 2025

• cancer-variants-training

  Public
  Lua

  •

  Creative Commons Attribution 4.0 International

  •2•6•0•0•Updated Jul 27, 2025Jul 27, 2025

• intro-machine-learning-training

  Public
  Jupyter Notebook

  •

  Creative Commons Attribution 4.0 International

  •18•49•0•0•Updated Jul 25, 2025Jul 25, 2025

• glittr

  Public
  A web application for finding and comparing bioinformatics training materials on GitHub and GitLab

  PHP

  •

  MIT License

  •3•41•3•0•Updated Jul 23, 2025Jul 23, 2025

• reproducible-analysis-training

  Public
  SIB course on FAIR analysis with Quarto, GitHub and Zenodo

  rstatszenodoquarto

  R

  •1•3•0•0•Updated Jul 23, 2025Jul 23, 2025

• kgsteward

  Public
  Knowledge Graph Steward - Command line tool to help manage RDF store

  Python

  •

  GNU General Public License v3.0

  •2•6•1•0•Updated Jul 21, 2025Jul 21, 2025

• training-collection

  Public
  Collection of bioinformatics training materials

  Python

  •

  Other

  •185•1k•1•0•Updated Jul 20, 2025Jul 20, 2025

• first-steps-with-R-training

  Public
  repository of the 2-day course "First steps with R in Life Sciences" from SIB-training

  trainingrprogramming+ 1training-materials

  R

  •

  Creative Commons Attribution 4.0 International

  •11•48•1•0•Updated Jul 16, 2025Jul 16, 2025

• unix-first-steps-training

  Public
  SIB First Steps with UNIX course

  3•7•0•0•Updated Jul 16, 2025Jul 16, 2025

• FAIR-training-flowchart

  Public
  Creative Commons Attribution 4.0 International

  •0•0•0•0•Updated Jul 15, 2025Jul 15, 2025

• first-steps-with-python-training

  Public
  repository of the 3-day course "First steps with Python in Life Sciences" from SIB-training

  Jupyter Notebook

  •

  Creative Commons Attribution 4.0 International

  •17•59•4•0•Updated Jul 10, 2025Jul 10, 2025

• single-cell-r-training

  Public
  SIB course on single cell transcriptomics by mostly using the Seurat pipeline

  HTML

  •

  Creative Commons Attribution 4.0 International

  •1•6•1•0•Updated Jul 4, 2025Jul 4, 2025

• chat-logs-viewer

  Public
  🔬 Web app to visually explore conversation logs generated by the ExpasyGPT chat

  chatchatbotlogs+ 1langfuse

  TypeScript

  •

  MIT License

  •0•1•0•0•Updated Jun 30, 2025Jun 30, 2025

• biodiversity-bioinformatics

  Public
  Course website "Biodiversity bioinformatics: from large-scale phylogenomics to gene families and functions"

  HTML

  •

  Creative Commons Attribution 4.0 International

  •1•2•0•0•Updated Jun 25, 2025Jun 25, 2025

• open-data-registry

  Public
  A registry of publicly available datasets on AWS

  Python

  •

  Apache License 2.0

  •1k•0•0•0•Updated Jun 22, 2025Jun 22, 2025

• sparql-editor

  Public
  💫 A standard web component to deploy a user-friendly SPARQL query editor for one or more endpoints. Built on the popular YASGUI editor, it provides context-aware autocomplete for classes and predicates based on the content of the endpoints.

  sparqlsparql-querysparql-query-builder+ 2sparql-editoryasgui

  TypeScript

  •

  MIT License

  •3•17•17•0•Updated Jun 19, 2025Jun 19, 2025

• sequencing-data-analysis-training

  Public
  SIB course that introduces analysis of NGS data

  trainingtutorialcourse+ 2teachingngs-analysis

  Shell

  •

  Creative Commons Attribution 4.0 International

  •14•16•4•0•Updated Jun 19, 2025Jun 19, 2025

• biology-informed-multiomics-training

  Public
  Biology-informed Multiomics Data Integration and Visualization

  R

  •

  Creative Commons Attribution 4.0 International

  •3•3•0•0•Updated Jun 19, 2025Jun 19, 2025

• FIDELIS-landscape-survey-analysis

  Public
  R

  •0•0•0•0•Updated Jun 17, 2025Jun 17, 2025