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@mskcc

Memorial Sloan Kettering

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  1. vcf2maf vcf2maf Public

    Convert a VCF into a MAF, where each variant is annotated to only one of all possible gene isoforms

    Perl 373 216

  2. facets facets Public

    Algorithm to implement Fraction and Copy number Estimate from Tumor/normal Sequencing.

    R 140 67

  3. ngs-filters ngs-filters Public

    Filters for false-positive mutation calls in NGS

    R 30 21

  4. iCallSV iCallSV Public

    Forked from rhshah/iCallSV

    A Framework to call Structural Variants from NGS based datasets

    Python 3 1

  5. mutation-signatures mutation-signatures Public

    Create mutation signatures from MAF's, and decompose them into Stratton signatures

    R 60 30

Repositories

Showing 10 of 224 repositories
  • ngs-stats Public

    NGS Statistics Database with historical Picard Stats, IGO fastq.gz paths and Sequencer Start & Stop Times

    mskcc/ngs-stats’s past year of commit activity
    HTML 1 0 2 1 Updated Nov 4, 2024
  • process_fastq Public

    This package will help process, merge and link fastq in user specified directory from manifest file

    mskcc/process_fastq’s past year of commit activity
    Python 0 0 0 16 Updated Nov 1, 2024
  • beagle Public

    Voyager Backend

    mskcc/beagle’s past year of commit activity
    Python 2 5 97 (2 issues need help) 19 Updated Nov 1, 2024
  • loki Public

    Workflow for handling CNV events

    mskcc/loki’s past year of commit activity
    Nextflow 0 MIT 1 0 0 Updated Nov 1, 2024
  • igo-sample-submission-node Public

    Sample Submission API written in node.js

    mskcc/igo-sample-submission-node’s past year of commit activity
    JavaScript 0 1 1 (1 issue needs help) 31 Updated Nov 1, 2024
  • tempo Public

    CCS research pipeline to process WES and WGS TN pairs

    mskcc/tempo’s past year of commit activity
    Groovy 12 5 49 (1 issue needs help) 7 Updated Oct 31, 2024
  • Penguin Public

    ecDNA detection pipeline for MSK Sequencing Data

    mskcc/Penguin’s past year of commit activity
    Jupyter Notebook 0 0 0 0 Updated Oct 31, 2024
  • neoantigen-pipeline Public

    Pipeline for computing neoantigen qualities from DNA and RNA-Seq data

    mskcc/neoantigen-pipeline’s past year of commit activity
    Python 1 MIT 0 8 2 Updated Oct 30, 2024
  • facets-preview Public Forked from taylor-lab/facets-preview

    Load, review and adjust facets fits

    mskcc/facets-preview’s past year of commit activity
    R 2 3 3 0 Updated Oct 30, 2024
  • forte Public

    Functional Observation of RNA Transcriptome Elements/Expression

    mskcc/forte’s past year of commit activity
    Nextflow 7 MIT 0 20 3 Updated Oct 30, 2024
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