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https://forum.ugene.net/forum/YaBB.pl General Category >> Feature Requests >> How to export base-by-base alignment coverage data? https://forum.ugene.net/forum/YaBB.pl?num=1355515062 Message started by brianm on Dec 15^th, 2012 at 2:57am

Title: How to export base-by-base alignment coverage data?
Post by brianm on Dec 15^th, 2012 at 2:57am

I've aligned sequences to a reference and would like to output a table that shows the depth of coverage at each position using the reference sequence base numbering.

Title: Re: How to export base-by-base alignment coverage data?
Post by Yuriy Vaskin on Dec 17^th, 2012 at 5:43pm

There is no way to export such information. Only visualization is available yet. But we already planned to implement it (https://ugene.unipro.ru/tracker/browse/UGENE-453)

Title: Re: How to export base-by-base alignment coverage data?
Post by Adam on Apr 2^nd, 2014 at 6:39am

Is there a work around for this? I'd really like a list of reference positions in one column, and coverage depth in a second column.

Title: Re: How to export base-by-base alignment coverage data?
Post by Yuriy Vaskin on May 9^th, 2014 at 3:19pm

We integrated bedtools genomeCov which has a number of options to show the coverage. It will be available in the next releases