Entering edit mode
17 months ago
Chris
▴
340
Hi all,
I don't know why I run similar command with the previous one I ran but I don't get the ID this time. The only thing I change is the vcf from another tool. Would you please have a suggestion? Thank you so much!
bcftools annotate -a /00-All.vcf.gz -c ID -o /sarek_ID.vcf.gz /variant_calling/deepvariant/sample_1/deepvariant.vcf.gz
Thanks Pierre! I used nf-core pipeline to get the vcf file this time, so how can I fix this?
Replacing the Chr names and position notions in vcf; VCF files: Change Chromosome Notation ; Changing Chromosome Notation On Vcf ; Change chromosome notation to match a new reference ; ....
I checked the vcf file before and after running the command, it used the notation chr1. The vcf which successfully add ID used the notation 1.