Haplotype map Picard CrosscheckFingerprints

Question

[loy_loy]

Hi everyone,

I am trying to run Picard CrosscheckFingerprints on two bamfiles to compare if they derive from the same patient. (https://gatk.broadinstitute.org/hc/en-us/articles/360041417052-CrosscheckFingerprints-Picard-) I need a haplotype map (e.g. in vcf format) for this process. Where/how do I get this file?

Thank you!

Best

Lynn

Answer 1

[loy_loy]

Found it here :)