Skip to content

@ikmb Institute of Clinical Molecular Biology

Change the repository type filter

All

    Repositories list

    65 repositories

    • eagleimp

      Public
      C++
      •
      GNU General Public License v3.0
      •3•22•0•0•Updated Nov 15, 2024Nov 15, 2024

    • MAGScoT

      Public
      MAGScoT - a MAG scoring and refinement tool
      R
      •
      GNU General Public License v3.0
      •2•28•3•0•Updated Oct 10, 2024Oct 10, 2024

    • 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 Sep 27, 2024Sep 27, 2024

    • TOFU-MAaPO

      Public
      Nextflow pipeline for the analysis of metagenomic short reads.
      nextflowmicrobiomepipelinemetagenomics
      Nextflow
      •
      GNU General Public License v3.0
      •4•11•0•1•Updated Aug 22, 2024Aug 22, 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

    • phewas-assoc

      Public
      The IKMB Association Testing Pipeline for PheWAS
      Python
      •
      GNU General Public License v3.0
      •0•1•0•0•Updated Jul 23, 2024Jul 23, 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•19•0•0•Updated Jul 5, 2024Jul 5, 2024

    • 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 Jun 4, 2024Jun 4, 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

    • HLApipePublic

      Public
      R
      •
      GNU General Public License v3.0
      •2•2•5•0•Updated Mar 28, 2024Mar 28, 2024

    • BloodTypingArray

      Public
      The software for the Intitutes genotyping array based blood group typing
      C++
      •
      MIT License
      •1•0•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

    • checkphase

      Public
      C++
      •
      GNU General Public License v3.0
      •0•0•1•0•Updated Nov 28, 2023Nov 28, 2023

    • 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 Nov 28, 2023Nov 28, 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

    • hla

      Public
      IKMB pipeline to type HLA alleles from NGS data
      Ruby
      •
      GNU General Public License v3.0
      •2•3•0•0•Updated Nov 9, 2023Nov 9, 2023

    • ucpsc-rnaseq

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

    • vep

      Public
      Run VEP on any number of VCFs
      Nextflow
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Nov 2, 2023Nov 2, 2023

    • exome-seq

      Public
      A best-practice exome analysis workflow.
      Nextflow
      •
      GNU General Public License v3.0
      •0•3•1•0•Updated Nov 2, 2023Nov 2, 2023

    • crc1182

      Public
      Data management resources for the CRC1182
      Ruby
      •
      GNU General Public License v3.0
      •1•0•0•0•Updated Oct 27, 2023Oct 27, 2023

    • cram2bam

      Public
      Convert a CRAM file to BAM
      Nextflow
      •
      GNU General Public License v3.0
      •0•1•0•0•Updated Oct 23, 2023Oct 23, 2023

    • variant-calling

      Public
      Generic variant calling pipeline for anything other than human
      Nextflow
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Oct 12, 2023Oct 12, 2023

    • nf-testdata

      Public
      Test datasets for nextflow pipelines.
      1•0•0•0•Updated Sep 29, 2023Sep 29, 2023

    • bacterial-annotation

      Public
      Annotates bacterial genome assemblies
      Nextflow
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Sep 22, 2023Sep 22, 2023

    • nf-template

      Public template
      A template for a creating a new nextflow pipeline project.
      Nextflow
      •
      GNU General Public License v3.0
      •1•1•0•0•Updated Sep 7, 2023Sep 7, 2023