Can ART be used to generate a WES .sam file rather than a WGS file?
0
1
Entering edit mode
18 months ago
K.patel5 ▴ 140

Dear biostars,

I am generating some synthetic sequencing files to benchmark my WES based CNV detection pipeline. I have generated a synthetic genome with simuG and am generating synthetic read files using ART with the code below.

art_illumina -ss HS20 -sam -i $genome -p -l 100 -f 20 -m 150 -s 10 -ir -dr -o $name

This creates a very detailed genome, but is there a way I can adjust the parameters to generate WES data instead?

Also does anyone have any advice on how to use ART in a way to generate more sporadic read depths across the genome? This would better simulate the quality of real-world data I am benchmarking by CNV detection pipeline for.

Cheers

genomics biology WGS synthetic WES • 333 views
ADD COMMENT

Login before adding your answer.

Traffic: 2481 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