Question: dbSNP 144 for Annovar
0
gravatar for Ishtiaq Ahmad Khan
3.8 years ago by
Pakistan
Ishtiaq Ahmad Khan50 wrote:

I am using annovar for human  genome annotation. I want to use dbSNP 144 as my alignment is on build hg38.2. I am wondering which file from dbSNP ftp I need to download. Secondly, Annovar uses txt format of dbSNP. How can I format my dbSNP 144 files. 

snp • 1.8k views
ADD COMMENTlink modified 3.8 years ago • written 3.8 years ago by Ishtiaq Ahmad Khan50
0
gravatar for Ishtiaq Ahmad Khan
3.8 years ago by
Pakistan
Ishtiaq Ahmad Khan50 wrote:

I have tried different options and bcftools annotate worked. I used vcf file of dbSNP 144 on hg38.2. 

bcftools annotate -a dbSNP_144.vcf -c ID -o output.vcf input.vcf

 

ADD COMMENTlink written 3.8 years ago by Ishtiaq Ahmad Khan50
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