Open sanjaynagi opened 2 years ago
Related -
Should we have a filter for:
and how many SNPs will this remove?
We should also potentially use a maximum depth filter within freebayes, we have --use-best-n-alleles which may do the same job, however.
This needs changing to 4 ideally as previous studies shown variant calling accurate above this level. already we have missingness filters high so this probably wont make much difference.