The relationship between QUAL and FQ INFO in mpileup output
0
0
Entering edit mode
9.7 years ago
mchone69 • 0

My mpileup output looks like this:

#CHROM    POS    ID    REF    ALT    QUAL    FILTER    INFO    FORMAT    HS
Chr1    1954    .    G    A    155    .    DP=21;VDB=0.0401;AF1=1;AC1=2;DP4=0,0,13,7;MQ=42;FQ=-87    GT:PL:DP:SP:GQ    1/1:188,60,0:20:0:99
Chr1    23056    .    C    A    169    .    DP=22;VDB=0.0388;AF1=1;AC1=2;DP4=0,0,12,10;MQ=42;FQ=-93    GT:PL:DP:SP:GQ    1/1:202,66,0:22:0:99
Chr1    31071    .    A    G    182    .    DP=31;VDB=0.0333;AF1=1;AC1=2;DP4=0,0,15,15;MQ=42;FQ=-117    GT:PL:DP:SP:GQ    1/1:215,90,0:30:0:99
Chr1    31478    .    C    T    169    .    DP=26;VDB=0.0394;AF1=1;AC1=2;DP4=0,0,15,11;MQ=42;FQ=-105    GT:PL:DP:SP:GQ    1/1:202,78,0:26:0:99
Chr1    33667    .    A    G    172    .    DP=24;VDB=0.0399;AF1=1;AC1=2;DP4=0,0,10,14;MQ=42;FQ=-99    GT:PL:DP:SP:GQ    1/1:205,72,0:24:0:99

Could someone tell me what's the relationship between QUAL and FQ, or how can I get the FQ value if I only have QUAL value?

THANKS A LOT.

SNP • 2.0k views
ADD COMMENT

Login before adding your answer.

Traffic: 2616 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6