Skip to content

1.0.0 - Curie Purpureal

Compare
Choose a tag to compare
@famosab famosab released this 16 Dec 14:45
· 2 commits to master since this release
bd07ec4

This is the initial release of a pipeline that can take (g)VCF files and converts them a table format useful for statistical analysis.

  1. Indexes (g.)vcf files (tabix)
  2. Converts g.vcf files to vcf with genotypegvcf (GATK)
  3. Merges all vcfs from the same sample with bcftools/merge (bcftools)
  4. Converts the (merged) vcfs to a matrix using a custom R script written by @ellisdoro (R)
  5. Collects all reports into a MultiQC report (MultiQC)