varscan

There are 0 repository under varscan topic.

• digo4 / Clinical-Genomics

  Here we are going to discuss variant calling on human datasets using GATK Best practices pipeline

  bcftoolsbowtie2bwa-memcutadaptfastpfastqcfreebayesgatk-bestpracticesgatk-cnvgatk-joint-variant-calling-workflowgatk4gatk4-haplotypecallerpicardsamtoolstrimgaloretrimmomaticvarscan
  Language:Shell 13

• PoisonAlien / varscan_accessories

  accessory scripts for processing varscan somatic/copynumber outputs.

  varscansomatic-variantsvcfconverts-varscan-somaticcopynumbersegmentation
  Language:Python 8

• nyuhuyang / RNAseq_pipeline

  Pipeline of somatic variant analysis using Waldenstrom macroglobulinemia patient’s RNA-seq data, including tools like STAR, HTseq, VarScan in parallel computing in SGE clusters, Deseq2 and GSEA in R

  rna-seq-analysisdeseq2htseqsamtoolsvarscan
  Language:HTML 2

• HaoKuo / NGS-pipeline

  GATK and VARSCAN analysis pipeline

  wdlcromwellpythongatkvarscan
  Language:Python 1

• MatveySprindzuk / GenomicsSoftware

  software for processing tuberculosis whole genome data. interface to the BWA, VarScan, SamTools etc.

  genomebioinformaticsngswgstuberculosismedicalbiologypygtksamtoolsvarscanmedicinedataprocessing-pipelinespythonmedical-informaticsbigdata
  0

• sfragkoul / Varscan2VCF

  Convert VarScan output to VCF format

  bioinformaticsvariant-callingvarscanvcf
  Language:Python 0

• oicr-gsi / varscan

  varscan repo contains code for Varscan workflow

  varscancromwellworkflowcnvsnvvariant-calling
  Language:WDL