View Single Post
Old 06-07-2017, 09:44 AM   #5
Brian Bushnell
Super Moderator
Location: Walnut Creek, CA

Join Date: Jan 2014
Posts: 2,707

Yep - you can use "covstats=covstats.txt covhist=covhist.txt" to print the coverage information of the whole genome as well as on a per-scaffold basis, and also give a distribution of base coverage over the genome. For more information see the "Coverage output parameters" section of Once the reads are mapped, using the sam or bam file, you can do the same thing with
Brian Bushnell is offline   Reply With Quote