Question: annovar-build a ensembl db
gravatar for walker
2.7 years ago by
walker30 wrote:

Hi, I download the latest ensembl hg38 fa and gtf myself, and it occurrs me how to build my annovar db based on these two file. Also, what's the difference between the different --format in annovar ? Please help!

database annovar • 965 views
ADD COMMENTlink modified 2.7 years ago by Kevin Blighe71k • written 2.7 years ago by walker30
gravatar for Kevin Blighe
2.7 years ago by
Kevin Blighe71k
Republic of Ireland
Kevin Blighe71k wrote:

Just use the in built ANNOVAR functions for annotation with ensembl: Switching to hg38 Ensembl gene annotation.

The --format parameter has different meanings in different ANNOVAR functions. If can just execute the functions without any command-line parameters in order to see the options available. For example, for, format relates to the input file format, such as VCF 'old', VCF v4, etc. For other commands, it may relate to the annotation source, e.g., --format refGene or --format ensGene


ADD COMMENTlink written 2.7 years ago by Kevin Blighe71k
Please log in to add an answer.


Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1895 users visited in the last hour