Hi,
Anyone knows what is DP4 in VCF? (I got from mpileup->bcftools view->)
In this VCF line:
chr1 1467416 . G C,T,X 35 . DP=105;AF1=0.5;CI95=0.5,0.5;DP4=36,33,30,5;MQ=47;PV4=0.001,3.5e-05,3.2e-21,0.0073
I undersatnd that:
DP=105 means Depth (or Coverage) is 105.
then what is DP4? DP4=36,33,30,5
I counted number of A/C/G/C , total is 105 but only about half A half C:
(see this pileup)
chr1 1467416 G G 62 0 49 105 .$C$C$C.CC,CCCCC.C.C.CCCC.C.C.C.CCCCCC,T..C...,.CCC.,
.,..,Ct,...,.c,c.cc,,,,,,,,.,,,,.,,,,.,..,.,.,,.,.,,^].^].^]. D!0,2))I3+8)3F+H%44'#2I4II-III22I4II7,I0IIIIFIIIIII/II03%HI<0III2IIIIHI%I#FIII)I1III56IIIIIIIBII/I6IE7@EE
thanks a lot!
Anyone knows what is DP4 in VCF? (I got from mpileup->bcftools view->)
In this VCF line:
chr1 1467416 . G C,T,X 35 . DP=105;AF1=0.5;CI95=0.5,0.5;DP4=36,33,30,5;MQ=47;PV4=0.001,3.5e-05,3.2e-21,0.0073
I undersatnd that:
DP=105 means Depth (or Coverage) is 105.
then what is DP4? DP4=36,33,30,5
I counted number of A/C/G/C , total is 105 but only about half A half C:
(see this pileup)
chr1 1467416 G G 62 0 49 105 .$C$C$C.CC,CCCCC.C.C.CCCC.C.C.C.CCCCCC,T..C...,.CCC.,
.,..,Ct,...,.c,c.cc,,,,,,,,.,,,,.,,,,.,..,.,.,,.,.,,^].^].^]. D!0,2))I3+8)3F+H%44'#2I4II-III22I4II7,I0IIIIFIIIIII/II03%HI<0III2IIIIHI%I#FIII)I1III56IIIIIIIBII/I6IE7@EE
thanks a lot!
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