Repositories list

• redundans

  Public
  Redundans is a pipeline that assists an assembly of heterozygous/polymorphic genomes.

  pythonbioinformaticspipeline+ 14

  pythonbioinformaticspipelinegenomicsassemblydocker-imagepolymorphicgapclosingfasta+ 7

  C++

  •

  GNU General Public License v3.0

  •2222 forks•177177 stars•00 issues•00 pull requests•Updated Apr 22, 2026Apr 22, 2026

• r_fluvialis

  Public
  R

  •00 forks•00 stars•00 issues•00 pull requests•Updated Apr 21, 2026Apr 21, 2026

• ancestral_GWAS_toolkit

  Public
  Python

  •00 forks•00 stars•00 issues•00 pull requests•Updated Apr 20, 2026Apr 20, 2026

• tree_from_SNPs

  Public
  Python

  •00 forks•00 stars•00 issues•00 pull requests•Updated Apr 20, 2026Apr 20, 2026

• Cparapsilosis_GenoPheno

  Public
  Python

  •00 forks•00 stars•00 issues•00 pull requests•Updated Apr 20, 2026Apr 20, 2026

• perSVade

  Public
  perSVade: personalized Structural Variation detection

  Python

  •

  GNU General Public License v3.0

  •55 forks•4141 stars•00 issues•00 pull requests•Updated Apr 2, 2026Apr 2, 2026

• Q-PHAST

  Public
  Python

  •22 forks•11 star•00 issues•00 pull requests•Updated Mar 24, 2026Mar 24, 2026

• Asgard

  Public
  R

  •00 forks•00 stars•00 issues•00 pull requests•Updated Mar 2, 2026Mar 2, 2026

• meTAline

  Public
  A snakemake pipeline for metagenomics analysis, it facilitates an efficient workflow to preprocess short reads metagenomics data: from read trimming and filteri…

  Python

  •

  GNU General Public License v3.0

  •00 forks•22 stars•11 issue•00 pull requests•Updated Feb 26, 2026Feb 26, 2026

• Cpara_complex_evol

  Public
  00 forks•00 stars•00 issues•00 pull requests•Updated Feb 1, 2026Feb 1, 2026

• C_glabrata_MDR

  Public
  00 forks•00 stars•00 issues•00 pull requests•Updated Nov 27, 2025Nov 27, 2025

• B-GUT-decontamination

  Public
  Python

  •00 forks•00 stars•00 issues•00 pull requests•Updated Oct 9, 2025Oct 9, 2025

• brlens

  Public
  Python

  •00 forks•00 stars•00 issues•00 pull requests•Updated Jul 17, 2025Jul 17, 2025

• structural_phylome

  Public
  Compute a sequence and structure based phylome based on uniprot proteomes.

  Python

  •

  GNU General Public License v3.0

  •11 fork•77 stars•00 issues•00 pull requests•Updated Jul 8, 2025Jul 8, 2025

• crossmapper

  Public
  Crossmapper software

  Python

  •

  GNU General Public License v3.0

  •11 fork•99 stars•33 issues•00 pull requests•Updated Jun 13, 2025Jun 13, 2025

• ghost_transfers

  Public
  R

  •22 forks•00 stars•00 issues•00 pull requests•Updated Apr 24, 2025Apr 24, 2025

• singularity-technical-seminar

  Public
  Technical seminar on containerizing bioinformatics pipelines 📦 🧬 💻 👩🏻‍💻 🧪

  Python

  •

  MIT License

  •00 forks•11 star•00 issues•00 pull requests•Updated Mar 4, 2025Mar 4, 2025

• Cglabrata_tradeoffs

  Public
  Python

  •00 forks•00 stars•00 issues•00 pull requests•Updated Dec 17, 2024Dec 17, 2024

• phylogenetic-reconstruction-for-hybrids

  Public
  Python

  •

  Other

  •00 forks•00 stars•00 issues•00 pull requests•Updated Oct 28, 2024Oct 28, 2024

• karyon

  Public
  This is the Karyon Pipeline

  Python

  •

  GNU General Public License v3.0

  •11 fork•33 stars•00 issues•00 pull requests•Updated Sep 13, 2024Sep 13, 2024

• C_albicans_with_albumin

  Public
  R

  •00 forks•00 stars•00 issues•00 pull requests•Updated Aug 30, 2024Aug 30, 2024

• jloh

  Public
  A tool to extract LOH blocks from VCF, BAM and FASTA data

  bioinformaticsgenomicsheterozygosity

  bioinformaticsgenomicsheterozygosity

  Python

  •

  GNU General Public License v3.0

  •33 forks•2525 stars•11 issue•33 pull requests•Updated Aug 30, 2024Aug 30, 2024

• extract-kraken-output-reads

  Public
  Extracts reads classified by Kraken as a specified taxonomy ID. Those reads are extracted into a new FASTA file. This tool is direct refactored derivation from …

  Python

  •

  GNU General Public License v3.0

  •00 forks•00 stars•00 issues•00 pull requests•Updated Aug 13, 2024Aug 13, 2024

• crosslink-by-sequence

  Public
  A tool to crosslink proteins between two proteomes from different sources using their sequences, aiming to avoid the inaccuracies associated with source-specifi…

  Python

  •

  GNU General Public License v3.0

  •00 forks•00 stars•00 issues•00 pull requests•Updated Aug 5, 2024Aug 5, 2024

• haplotypo

  Public
  This is the Haplotypo repository

  Python

  •

  GNU General Public License v3.0

  •66 forks•2222 stars•11 issue•00 pull requests•Updated May 24, 2024May 24, 2024

• lung_microbiome_16S

  Public
  R

  •00 forks•00 stars•00 issues•00 pull requests•Updated May 20, 2024May 20, 2024

• ete

  Public
  Python package for building, comparing, annotating, manipulating and visualising trees. It provides a comprehensive API and a collection of command line tools, …

  Python

  •

  GNU General Public License v3.0

  •226226 forks•00 stars•00 issues•00 pull requests•Updated Apr 26, 2024Apr 26, 2024

• how2code

  Public
  Technical seminar regarding good practices in writing code and documentation

  Python

  •00 forks•00 stars•00 issues•00 pull requests•Updated Feb 14, 2024Feb 14, 2024

• Candida_nextPARS

  Public
  Python

  •00 forks•00 stars•00 issues•00 pull requests•Updated Jan 29, 2024Jan 29, 2024

• last

  Public
  "Fork" of LAST (https://gitlab.com/mcfrith/last) v1418

  C++

  •11 fork•00 stars•00 issues•00 pull requests•Updated Oct 17, 2023Oct 17, 2023