Variant calling with bcftools

Variant calling with bcftools

This recipe follows the variant calling process in the Biostar Handbook.

1 result • updated 9 days ago by Istvan Albert

This recipe follows the variant calling process in the Biostar Handbook.

The recipe obtains the reference genome AF086833 (the Ebola Mayinga strain of 1976) and will align it the sequencing data obtained from the 2014 outbreak deposited as SRA id SRR1972739

The recipe produces:

  1. a genome for the reference genome
  2. a GFF file for the reference genome
  3. a BAM alignment file
  4. a VCF file for the sequencing run.

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