gives an estimation of the sequencing bias based on known invariant sites
meta
Groovy Map containing sample information e.g. [ id:‘test’, single_end
bam
BAM file
*.bam
bai
BAI file
*.bai
empiric
Optional txt file from PMD estimations (atlas/pmd)
*.txt
alleles
Optional bed file with known alleles
*.bed
invariant_sites
Optional bed file with invariant site coordinates
versions
File containing software versions
versions.yml
recal_patterns
file containing the sequencing bias for each of the Read Group pools
ATLAS, a suite of methods to accurately genotype and estimate genetic diversity
