1,102
edits
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Passed Common biallelic SNPs or rare indels : ((PASS&&VTYPE==SNP&&N_ALLELE==2&&INFO.AF>0.005)||(VTYPE&INDEL&&INFO.AF<=0.005))&&QUAL>100
Passed Common biallelic SNPs or rare indels : ((PASS&&VTYPE==SNP&&N_ALLELE==2&&INFO.AF>0.005)||(VTYPE&INDEL&&INFO.AF<=0.005))&&QUAL>100
with quality greater than 100
with quality greater than 100
Failed rare variants : ~PASS&&(INFO.AC/INFO.AN<0.005)
Regular expression matching PERL style (implemented with pcre2)
Regular expression matching PERL style (implemented with pcre2)
just use INFO.ANNO=~'<perl regular expression>'
just use INFO.ANNO=~'<perl regular expression>'
Passed variants in intergenic regions : PASS&&INFO.ANNO=~'^Intergenic'
Passed variants in intergenic regions or UTR : PASS&&INFO.ANNO=~'Intergenic|UTR'
Operations
Operations
==,!=,=~,~,&&,||,&,|,+,-,*,/
The motivation in this case is because Indels are a heterogeneous set of variants and thus we usually examine them
The motivation in this case is because Indels are a heterogeneous set of variants and thus we usually examine them
from many different characteristics. The following programs support filter support.
from many different characteristics. The following programs support filter support.
