alachins
commented
2 years ago Hi there, RAiSD doesn' t parse indels in vcf files and discarded sites are reported as HeaderCheckFailed. Best regards, Nikos A.
On Fri, Dec 3, 2021 at 8:04 AM dzaccook @.***> wrote:
Dear, I want to use raisd for indels in vcf file, but all sites were discarded, but the same format of SNPs can be used, so I think the problem is not HeaderCheckFailed. Can raisd use indels?
Index: Name | Sites = SNPs + Discarded | Discarded = HeaderCheckFailed + MAFCheckFailed + WithMissing + Monomorphic 0: 1 | 130746 = 0 + 130746 | 130746 = 130746 + 0 + 0 + 0
Thank you!
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-- Nikolaos Alachiotis
Dear, I want to use raisd for indels in vcf file, but all sites were discarded, but the same format of SNPs can be used. Can raisd use indels?
Index: Name | Sites = SNPs + Discarded | Discarded = HeaderCheckFailed + MAFCheckFailed + WithMissing + Monomorphic 0: 1 | 130746 = 0 + 130746 | 130746 = 130746 + 0 + 0 + 0
Thank you!