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    72 repositories

    • phewas-assoc

      Public
      The IKMB Association Testing Pipeline for PheWAS
      Python
      •
      GNU General Public License v3.0
      •0•1•0•0•Updated Jul 29, 2025Jul 29, 2025

    • TOFU-MAaPO

      Public
      Nextflow pipeline for the analysis of metagenomic short reads.
      nextflowmicrobiomepipelinemetagenomics
      Nextflow
      •
      GNU General Public License v3.0
      •6•13•1•1•Updated Jul 28, 2025Jul 28, 2025

    • shiny_mikrob

      Public
      R
      •
      MIT License
      •0•0•2•0•Updated Jul 24, 2025Jul 24, 2025

    • checkphase

      Public
      C++
      •
      GNU General Public License v3.0
      •0•0•1•0•Updated Jul 23, 2025Jul 23, 2025

    • HLApipePublic

      Public
      R
      •
      GNU General Public License v3.0
      •2•2•5•0•Updated Jul 2, 2025Jul 2, 2025

    • TCR2HLA

      Public
      The project contains, scripts, databases, resources and models for imputing HLA-TCR interactions
      Python
      •0•0•0•0•Updated Jul 1, 2025Jul 1, 2025

    • exome-seq

      Public
      A best-practice exome analysis workflow.
      Nextflow
      •
      GNU General Public License v3.0
      •0•4•1•0•Updated Jun 18, 2025Jun 18, 2025

    • hla

      Public
      IKMB pipeline to type HLA alleles from NGS data
      Ruby
      •
      GNU General Public License v3.0
      •2•3•0•0•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
      •0•0•0•0•Updated May 20, 2025May 20, 2025

    • eagleimp

      Public
      C++
      •
      GNU General Public License v3.0
      •4•26•1•0•Updated May 16, 2025May 16, 2025

    • vcffilter

      Public
      C++
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated May 2, 2025May 2, 2025

    • catch-all

      Public
      Data management resources for the clinical research unit catch-all.
      Python
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Apr 30, 2025Apr 30, 2025

    • bloodAGENT

      Public
      C++
      •
      BSD 2-Clause "Simplified" License
      •0•0•0•0•Updated Apr 25, 2025Apr 25, 2025

    • ngs-qc

      Public
      QC tools for new sequencing runs (FastQC, FastQ Screen, MultiQC Report)
      Nextflow
      •
      GNU General Public License v3.0
      •1•0•0•0•Updated Apr 15, 2025Apr 15, 2025

    • TOFUpaper

      Public
      Shell
      •0•0•0•0•Updated Mar 24, 2025Mar 24, 2025

    • hybridgwais

      Public
      Fast epistasis screening software using hardware accelerators (incl. FPGA and GPU)
      C++
      •
      GNU General Public License v3.0
      •1•3•0•0•Updated Mar 14, 2025Mar 14, 2025

    • nfdi4microbiota_kmc_microbiome_workshop

      Public
      Jupyter Notebook
      •
      MIT License
      •2•1•0•0•Updated Mar 13, 2025Mar 13, 2025

    • MAGScoT

      Public
      MAGScoT - a MAG scoring and refinement tool
      R
      •
      GNU General Public License v3.0
      •2•35•2•0•Updated Oct 10, 2024Oct 10, 2024

    • MMmicrobiomeLab

      Public
      1•0•0•0•Updated Aug 19, 2024Aug 19, 2024

    • hybridgwais-fpga

      Public
      FPGA design files for HybridGWAIS
      VHDL
      •
      GNU General Public License v3.0
      •0•0•0•0•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-interactionlong-short-term-memoryamino-acidtensorflow2sequence-emamino-acid-encoding
      Python
      •5•21•0•0•Updated Jul 5, 2024Jul 5, 2024

    • GP2_dataset_analysis

      Public
      Jupyter Notebook
      •0•0•0•0•Updated May 10, 2024May 10, 2024

    • finemapping

      Public
      A Nextflow framework for finemap
      Python
      •
      GNU General Public License v3.0
      •1•2•0•0•Updated Apr 26, 2024Apr 26, 2024

    • cfDNA-quantile

      Public
      Python
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Apr 4, 2024Apr 4, 2024

    • BloodTypingArray

      Public
      The software for the Institutes Microarray based blood group typing
      C++
      •
      MIT License
      •3•1•0•0•Updated Mar 4, 2024Mar 4, 2024

    • vcf2ethnicity

      Public
      Determine ethnicity from (exome) vcf file (GRCh38)
      C++
      •
      GNU General Public License v3.0
      •0•1•0•0•Updated Dec 11, 2023Dec 11, 2023

    • dragen-variant-calling

      Public
      Variant calling pipeline for the Illumina Dragen platform
      Nextflow
      •
      Apache License 2.0
      •0•6•1•0•Updated Dec 7, 2023Dec 7, 2023

    • deepvariant

      Public
      Deepvariant end-to-end workflow
      Nextflow
      •
      GNU General Public License v3.0
      •0•1•0•0•Updated Nov 15, 2023Nov 15, 2023

    • vcf-concordance

      Public
      Check VCF files against a reference.
      Nextflow
      •
      GNU General Public License v3.0
      •0•1•0•0•Updated Nov 15, 2023Nov 15, 2023

    • ucpsc-rnaseq

      Public
      R
      •0•1•0•0•Updated Nov 3, 2023Nov 3, 2023