Ensmble ids to gene names in SNPEff output VCF file
0
0
Entering edit mode
5 months ago

Hello, I have used SNPEff for variant annotation. I built own database using GRCH38 release 84. In the output file I get 2 fields for gene name and gene id but instead of gene names I get gene ids in both fields. I had used RefSeq too but it gives a lot of missing information. Can anyone help me with how to get gene names in output. Thank you .

CHROM POS ID REF ALT QUAL FILTER INFO FORMAT

1 14776 rs201013861 G A . PASS ANN=A|upstream_gene_variant|MODIFIER|gene:ENSG00000278267|gene:ENSG00000278267|transcript|ENST00000619216|miRNA||n.-2592G>A|||||2593|

SNP RNA-Seq • 169 views
ADD COMMENT

Login before adding your answer.

Traffic: 2427 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