This tool will count the alleles in multiple bam files. It's posible to count alleles for each separated readgroup. This can be used for quality checks.
For documentation and manuals visit our github.io page.
CountAlleles is part of BIOPET tool suite that is developed at LUMC by the SASC team. Each tool in the BIOPET tool suite is meant to offer a standalone function that can be used to perform a dedicate data analysis task or added as part of a pipeline, for example the SASC team's biowdl pipelines.