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Pinned

  1. GATK-WGS-Pipeline GATK-WGS-Pipeline Public

    GATK WGS workflow

    Shell

  2. PCA-Ethnicity-Determination-from-WGS-Data PCA-Ethnicity-Determination-from-WGS-Data Public

    A pipeline utilizing PCA on 1000 genomes and WGS data from your own samples to determine or validate ancestry of an individual.

    Shell 2

  3. SV-calling-with-SpeedSeq SV-calling-with-SpeedSeq Public

    A workflow for using SpeedSeq to align and call SVs from WGS data

    Shell 1

  4. Structural-Variant-Detection-Annotation-and-Plotting-Tools Structural-Variant-Detection-Annotation-and-Plotting-Tools Public

    Useful tools for the analysis of structural variation (SV) in the genome. Includes tools used for SV detection, annotation, and plotting resources.

  5. Differentially-mutated-genes Differentially-mutated-genes Public

    Fisher's tests (with or without) correction for multiple testing on 2x2 contingency tables. Uses a list of genes from two populations to test if any are significantly mutated/disrupted by SVs in on…

    R

  6. SNV-Annotation-Tools SNV-Annotation-Tools Public

    Useful tools for variant annotation

    1