Changes

Vt

105 bytes added, 17:02, 27 December 2016

→‎Filters

Biallelic variants involving 1bp variants : LEN==1&&N_ALLELE==2

Variants with explicit sequences with no Ns : ~VARIANT_CONTAINS_N

REF field

REF

ALT field

ALT

QUAL field

INFO fields

INFO.<tag>

Alternative allele is AC : ALT=='AC'

Passed biallelic SNPs only : PASS&&VTYPE==SNP&&N_ALLELE==2

Passed Common biallelic SNPs only : PASS&&VTYPE==SNP&&N_ALLELE==2&&INFO.AF>0.005

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