Repositories list

• TOFU-MAaPO

  Public
  Nextflow pipeline for the analysis of metagenomic short reads.

  pipelinenextflowmetagenomics+ 1

  pipelinenextflowmetagenomicsmicrobiome

  Nextflow

  •

  GNU General Public License v3.0

  •88 forks•2525 stars•22 issues•00 pull requests•Updated Jul 3, 2026Jul 3, 2026

• run_ampliseq

  Public
  R

  •

  MIT License

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

• phewas-assoc

  Public
  The IKMB Association Testing Pipeline for PheWAS

  Python

  •

  MIT License

  •00 forks•11 star•00 issues•00 pull requests•Updated Jun 16, 2026Jun 16, 2026

• shiny_mikrob

  Public
  R

  •

  MIT License

  •00 forks•00 stars•33 issues•00 pull requests•Updated May 21, 2026May 21, 2026

• hla

  Public
  IKMB pipeline to type HLA alleles from NGS data

  Ruby

  •

  GNU General Public License v3.0

  •22 forks•33 stars•00 issues•00 pull requests•Updated May 6, 2026May 6, 2026

• TOFUpaper

  Public
  Shell

  •00 forks•11 star•00 issues•00 pull requests•Updated Apr 23, 2026Apr 23, 2026

• workshopDK2026

  Public
  Jupyter Notebook

  •

  MIT License

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

• MAGScoT

  Public
  MAGScoT - a MAG scoring and refinement tool

  Python

  •

  GNU General Public License v3.0

  •33 forks•4848 stars•44 issues•00 pull requests•Updated Apr 8, 2026Apr 8, 2026

• Madagascar_Germany_18S

  Public
  Analysis of eukaryotic and prokaryotic fecal microbiota from Madagascar and Germany

  R

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

• eagleimp

  Public
  C++

  •

  GNU General Public License v3.0

  •44 forks•2828 stars•11 issue•00 pull requests•Updated Mar 13, 2026Mar 13, 2026

• EagleImp-RAP

  Public
  Eagleimp app for the UKB RAP (dnanexus)

  Shell

  •

  GNU General Public License v3.0

  •00 forks•00 stars•00 issues•00 pull requests•Updated Mar 12, 2026Mar 12, 2026

• PSC-scDRS

  Public
  JavaScript

  •11 fork•00 stars•00 issues•00 pull requests•Updated Feb 5, 2026Feb 5, 2026

• ngs-qc

  Public
  QC tools for new sequencing runs (FastQC, FastQ Screen, MultiQC Report)

  Nextflow

  •

  GNU General Public License v3.0

  •11 fork•00 stars•00 issues•00 pull requests•Updated Jan 20, 2026Jan 20, 2026

• bloodAGENT

  Public
  C++

  •

  BSD 2-Clause "Simplified" License

  •22 forks•88 stars•00 issues•00 pull requests•Updated Jan 14, 2026Jan 14, 2026

• checkphase

  Public
  C++

  •

  GNU General Public License v3.0

  •00 forks•00 stars•11 issue•00 pull requests•Updated Dec 2, 2025Dec 2, 2025

• catch-all

  Public
  Data management resources for the clinical research unit catch-all.

  Python

  •

  GNU General Public License v3.0

  •00 forks•00 stars•00 issues•00 pull requests•Updated Oct 1, 2025Oct 1, 2025

• igA_16S_KIN

  Public
  HTML

  •00 forks•00 stars•00 issues•00 pull requests•Updated Sep 24, 2025Sep 24, 2025

• HLApipePublic

  Public
  R

  •

  GNU General Public License v3.0

  •22 forks•22 stars•55 issues•00 pull requests•Updated Jul 2, 2025Jul 2, 2025

• TCR2HLA

  Public
  The project contains, scripts, databases, resources and models for imputing HLA-TCR interactions

  Python

  •00 forks•33 stars•00 issues•00 pull requests•Updated Jul 1, 2025Jul 1, 2025

• exome-seq

  Public
  A best-practice exome analysis workflow.

  Nextflow

  •

  GNU General Public License v3.0

  •00 forks•44 stars•11 issue•00 pull requests•Updated Jun 18, 2025Jun 18, 2025

• BotTop2PlusMinus

  Public
  Convert Illumina Manifest file with Bot/Top annotation to SNP array DB compatible +/- annotation

  C++

  •

  MIT License

  •00 forks•00 stars•00 issues•00 pull requests•Updated May 20, 2025May 20, 2025

• vcffilter

  Public
  C++

  •

  GNU General Public License v3.0

  •00 forks•00 stars•00 issues•00 pull requests•Updated May 2, 2025May 2, 2025

• hybridgwais

  Public
  Fast epistasis screening software using hardware accelerators (incl. FPGA and GPU)

  C++

  •

  GNU General Public License v3.0

  •11 fork•33 stars•00 issues•11 pull request•Updated Mar 14, 2025Mar 14, 2025

• nfdi4microbiota_kmc_microbiome_workshop

  Public
  Jupyter Notebook

  •

  MIT License

  •22 forks•22 stars•00 issues•00 pull requests•Updated Mar 13, 2025Mar 13, 2025

• hybridgwais-fpga

  Public
  FPGA design files for HybridGWAIS

  VHDL

  •

  GNU General Public License v3.0

  •00 forks•00 stars•00 issues•00 pull requests•Updated Aug 6, 2024Aug 6, 2024

• amino_acid_encoding_deep_learning_applications

  Public
  The repository contains all the code for the paper amino acid encoding using deep learning application

  convolutional-neural-networkshlaprotein-protein-interaction+ 5

  convolutional-neural-networkshlaprotein-protein-interactionlong-short-term-memoryamino-acidtensorflow2sequence-emamino-acid-encoding

  Python

  •55 forks•2020 stars•00 issues•00 pull requests•Updated Jul 5, 2024Jul 5, 2024

• GP2_dataset_analysis

  Public
  Jupyter Notebook

  •00 forks•00 stars•00 issues•00 pull requests•Updated May 10, 2024May 10, 2024

• finemapping

  Public
  A Nextflow framework for finemap

  Python

  •

  GNU General Public License v3.0

  •11 fork•22 stars•00 issues•00 pull requests•Updated Apr 26, 2024Apr 26, 2024

• cfDNA-quantile

  Public
  Python

  •

  GNU General Public License v3.0

  •00 forks•00 stars•00 issues•00 pull requests•Updated Apr 4, 2024Apr 4, 2024

• BloodTypingArray

  Public
  The software for the Institutes Microarray based blood group typing

  C++

  •

  MIT License

  •33 forks•11 star•00 issues•00 pull requests•Updated Mar 4, 2024Mar 4, 2024