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@qbic-pipelines

QBiC (qbic-pipelines)

Bioinformatics analysis pipelines at QBiC

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  1. rnadeseq rnadeseq Public

    Differential gene expression analysis and pathway analysis of RNAseq data

    Nextflow 32 20

  2. cellranger cellranger Public

    Nextflow pipeline wrapper for executing Cell Ranger

    Nextflow 12 2

  3. vcftomaf vcftomaf Public

    Nextflow 9 5

  4. icgc-featurecounts icgc-featurecounts Public

    Forked from apeltzer/IGCG-featureCounts

    A Nextflow pipeline to run featureCounts on RNAseq BAM files on ICGC in AWS/AWS Batch

    Nextflow 3 3

  5. metapep metapep Public

    From metagenomes to epitopes and beyond

    Nextflow 3 1

  6. variantmtb variantmtb Public

    Nextflow 3 1

Repositories

Showing 10 of 23 repositories
  • querynator Public
    qbic-pipelines/querynator’s past year of commit activity
    Python 1 MIT 6 4 1 Updated Jul 2, 2024
  • lsmquant Public
    qbic-pipelines/lsmquant’s past year of commit activity
    Nextflow 0 MIT 0 0 0 Updated Jul 2, 2024
  • rnadeseq Public

    Differential gene expression analysis and pathway analysis of RNAseq data

    qbic-pipelines/rnadeseq’s past year of commit activity
    Nextflow 32 MIT 20 5 0 Updated Jun 17, 2024
  • variantmtb Public
    qbic-pipelines/variantmtb’s past year of commit activity
    Nextflow 3 MIT 1 4 1 Updated Apr 30, 2024
  • intersectvcfs Public

    Intersects Strelka2 and Mutect2 VCF files

    qbic-pipelines/intersectvcfs’s past year of commit activity
    Nextflow 0 MIT 1 0 0 Updated Apr 5, 2024
  • vcftomaf Public
    qbic-pipelines/vcftomaf’s past year of commit activity
    Nextflow 9 MIT 5 2 0 Updated Mar 20, 2024
  • root-tissue-segmentation-core Public Forked from Waseju/root-tissue-segmentation

    Project to automate the segment the root tissue of A. thaliana into 5 different classes, includes automated HPO.

    qbic-pipelines/root-tissue-segmentation-core’s past year of commit activity
    Python 1 MIT 2 0 0 Updated Feb 23, 2024
  • root-tissue-analysis Public

    Pipeline for pH analysis of A. thaliana root tissue

    qbic-pipelines/root-tissue-analysis’s past year of commit activity
    Jupyter Notebook 1 MIT 1 7 0 Updated Feb 23, 2024
  • createpanelofnormals Public

    Create panel of normals for Mutect2 & CNVKit

    qbic-pipelines/createpanelofnormals’s past year of commit activity
    Nextflow 1 MIT 2 0 0 Updated Aug 11, 2023
  • pipeline-docs Public

    Docs for QBiC pipelines

    qbic-pipelines/pipeline-docs’s past year of commit activity
    1 12 0 1 Updated Jul 27, 2023
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