How to set up -downsample_to_coverage
Hi Sir or Madam,
I have one question about the parameter: downsample_to_coverage. I am trying to use UnifiedGenotyper to analyze 100 bam files together, each bam file coverage is larger than 30x.
If I set up the -dcov as 200, does this mean, 200 reads are randomly selected from each bam file and than call the variants? or 200 reads are randomly selected from all of 100 samples, each sample only contributes 2 reads? Thanks. I really appreciate your help.