Repositories list

• training-cookbook

  Public
  Other

  •0•0•0•0•Updated Apr 25, 2025Apr 25, 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

  •4•33•2•0•Updated Apr 25, 2025Apr 25, 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 Apr 25, 2025Apr 25, 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 Apr 25, 2025Apr 25, 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 Apr 22, 2025Apr 22, 2025

• single-cell-python-training

  Public
  HTML

  •

  Creative Commons Attribution 4.0 International

  •0•3•0•0•Updated Apr 20, 2025Apr 20, 2025

• spatial-transcriptomics-training

  Public
  R

  •

  Creative Commons Attribution 4.0 International

  •1•2•1•0•Updated Apr 20, 2025Apr 20, 2025

• glittr-stats

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

  PostScript

  •0•2•0•0•Updated Apr 20, 2025Apr 20, 2025

• cancer-variants-training

  Public
  Lua

  •

  Creative Commons Attribution 4.0 International

  •2•5•0•0•Updated Apr 20, 2025Apr 20, 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

  •2•14•13•0•Updated Apr 18, 2025Apr 18, 2025

• snp_detect

  Public archive
  Scans a multiple alignment composed of genomic, mRNA, and EST sequences that are believed to originate from the same gene for the presence of sequence variations

  Fortran

  •

  GNU General Public License v3.0

  •0•0•0•0•Updated Apr 16, 2025Apr 16, 2025

• prosite_scan

  Public archive
  PERL scripts for PROSITE searching and related stuff

  HTML

  •

  GNU General Public License v3.0

  •0•0•0•0•Updated Apr 16, 2025Apr 16, 2025

• PrfLib

  Public archive
  Collection of experimental programs supporting the new profile format and search method of PROSITE and NUCSITE

  C

  •

  GNU General Public License v3.0

  •0•0•0•0•Updated Apr 16, 2025Apr 16, 2025

• BTLib

  Public archive
  Biology Toolkit Library Perl module: This Perl module provides objects useful for parsing and extracting information from DNA, protein, and other type of textual data found in biology sequence analysis and bioinformatics. It also provides scripts to index and retrieve records from databases in flat files.

  Perl

  •

  GNU General Public License v3.0

  •0•0•0•0•Updated Apr 16, 2025Apr 16, 2025

• NGS-introduction-training

  Public
  SIB course that introduces analysis of NGS data

  Shell

  •

  Creative Commons Attribution 4.0 International

  •14•0•0•0•Updated Apr 15, 2025Apr 15, 2025

• intro-bayesian-statistics-training

  Public
  SIB course on bayesian statistics with applications using Rstan

  trainingrstatistics+ 2training-materialsbayesian-statistics

  HTML

  •

  Creative Commons Attribution 4.0 International

  •11•33•0•0•Updated Apr 15, 2025Apr 15, 2025

• sparql-examples

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

  HTML

  •

  Other

  •19•15•6•3•Updated Apr 15, 2025Apr 15, 2025

• course-report

  Public
  R

  •0•0•0•0•Updated Apr 15, 2025Apr 15, 2025

• containers-snakemake-training

  Public
  Course website "Introduction to Containers and Snakemake for Reproducible Research"

  Dockerfile

  •

  Creative Commons Attribution 4.0 International

  •15•5•0•0•Updated Apr 15, 2025Apr 15, 2025

• kgsteward

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

  Python

  •

  GNU General Public License v3.0

  •2•6•0•0•Updated Apr 14, 2025Apr 14, 2025

• training-collection

  Public
  Collection of bioinformatics training materials

  Python

  •

  Other

  •183•1k•1•0•Updated Apr 13, 2025Apr 13, 2025

• ESTScan

  Public archive
  ESTScan is a program that can detect coding regions in DNA sequences, even if they are of low quality. ESTScan will also detect and correct sequencing errors that lead to frameshifts.

  Perl

  •

  Other

  •0•0•0•0•Updated Apr 11, 2025Apr 11, 2025

• pyrheadb

  Public
  Repository for the Python package intended to facilitate access to Rhea data from Python

  Python

  •

  MIT License

  •0•1•0•0•Updated Apr 8, 2025Apr 8, 2025

• unix-first-steps-training

  Public
  SIB First Steps with UNIX course

  3•6•0•0•Updated Apr 7, 2025Apr 7, 2025

• CAS-UNIL-intro-to-unix

  Public
  Introduction to Linux / UNIX and the Bash shell - UNIL CAS in data stewardship

  linuxbashunix

  0•0•0•0•Updated Apr 7, 2025Apr 7, 2025

• sparql-examples-utils

  Public
  A tool to maintain and test your SPARQL examples

  qualitysparqlrdf

  Java

  •

  Other

  •19•5•13•2•Updated Apr 5, 2025Apr 5, 2025

• boxshade

  Public archive
  Boxshade is a program for creating good looking printouts from multiple- aligned protein or DNA sequences

  C

  •0•0•0•0•Updated Apr 4, 2025Apr 4, 2025

• statistics-and-machine-learning-training

  Public
  Jupyter Notebook

  •

  Creative Commons Attribution 4.0 International

  •12•28•0•1•Updated Mar 31, 2025Mar 31, 2025

• obelisk-docker

  Public
  Shell

  •0•1•0•0•Updated Mar 31, 2025Mar 31, 2025

• react-dotlet

  Public
  Full JS version of Dotlet

  JavaScript

  •

  GNU Affero General Public License v3.0

  •3•19•4•19•Updated Mar 28, 2025Mar 28, 2025