Possible Polyploidy Alleles filter

The Possible Polyploidy Alleles filter can be added to filter chains to detect searches alleles which have passed all variant calling filters used by the Torrent Variant Caller (TVC) module but missed by genotype. The Variant Finding parameter PPA must be set to True for this filter to function. For more information, see Customize tuning parameters.

The Possible Polyploidy Alleles filter is useful for identification of variants beyond diploid genomes, that is, cancer cells or polyploidy species.

Filter conditions include the ability to select YES to find alleles that have passed all filters, NO, to find alleles that have not passed all filters in addition to genotype, or both YES and NO.