Usage in ZZ/ZW systems

[okendojo]

Can this tool be used in ZZ or ZW systems?

[thw17]

Yep! For the mapping, simply apply the XX options to the ZZ individuals and XY options to the ZW individuals, respectively. For sex identification, allele balance should still work, but you might want to explore a few options (see the paper for more details), as allele balance and sequencing coverage will depend on age of sex chromosomes, type of sequencing data, etc.