Tools for predicting the protein altering effects of the variants from EXON-seq data
0
0
Entering edit mode
14 months ago
a.james ▴ 220

Hi

Say I have a lot of variants including INDELS, SNVs, SNPs, etc from the exon-seq dataset. Now, I need to predict whether or not they have any protein-altering effects (for eg. missense, sense), etc.. I need to know whether or not there are any tools available for this which I can use on the command line.

I am aware of ENSEMBLE's online tool for this case. I need to process results from multiple samples.

Any help/suggestion is much appreciated!

Exon-seq variants SNP sequencing • 472 views
ADD COMMENT
0
Entering edit mode

I am aware of ENSEMBLE's online tool for this case

ensembl's VEP is available as a command line.... https://www.ensembl.org/info/docs/tools/vep/script/index.html

ADD REPLY
0
Entering edit mode

@Pierre Thanks for the link! That's helpful.

ADD REPLY

Login before adding your answer.

Traffic: 1054 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