Expanding gVCF box from GATK
0
0
Entering edit mode
9 months ago
Axzd ▴ 70

Hello,

I wanted to expand the gVCF block of my vcf but I got this as a result

##bcftools_convertCommand=convert --gvcf2vcf -f Adineta_vaga.fsa; Date=Tue Aug  1 11:51:21 2023
#CHROM  POS     ID      REF     ALT     QUAL    FILTER  INFO    FORMAT  ancestor
Chrom_3 793     .       G       T       172.33  .       AC=2;AF=1;AN=2;DP=10;ExcessHet=3.0103;FS=0;InbreedingCoeff=0.4054;MLEAC=3;MLEAF=0.5;MQ=25;QD=21.54;SOR=4.407    GT:AD:DP:GQ:PL  1/1:0,3:3:9:89,9,0
Chrom_3 1387    .       A       T       66.18   .       AC=0;AF=1;AN=0;DP=2;ExcessHet=3.0103;FS=0;InbreedingCoeff=0.354;MLEAC=1;MLEAF=0.5;MQ=27;QD=33.09;SOR=2.303      GT:AD:DP:GQ:PGT:PID:PL:PS       ./.:0,0:0:.:.:.:0,0,0:.
Chrom_3 1398    .       C       T       66.18   .       AC=0;AF=1;AN=0;DP=3;ExcessHet=3.0103;FS=0;InbreedingCoeff=0.354;MLEAC=1;MLEAF=0.5;MQ=27;QD=33.09;SOR=2.303      GT:AD:DP:GQ:PGT:PID:PL:PS       ./.:

That doesn't seem so expanded to me ^^' Any idea what might have gone wrong? The command I used is in the code above/

GATK VCF gVCF • 364 views
ADD COMMENT
0
Entering edit mode

show us the gVCF

ADD REPLY

Login before adding your answer.

Traffic: 1778 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