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mido1951 · 06-08-2017, 04:50 AM

I did a mapping of the long reads on a reference genome using bbmap (with covstats option). I wanted to know if all the reference genome is covred by the long reads.

I do not mean what the different words mean: "Average coverage, Standard deviation, Percent scaffolds with any coverage, Percent of reference bases covered".??

How can I know if the whole reference genomeis covered by long reads?

Thanks.

06-08-2017, 04:50 AM	#8
mido1951 Senior Member Location: Tunisia Join Date: May 2014 Posts: 123	I did a mapping of the long reads on a reference genome using bbmap (with covstats option). I wanted to know if all the reference genome is covred by the long reads. I do not mean what the different words mean: "Average coverage, Standard deviation, Percent scaffolds with any coverage, Percent of reference bases covered".?? How can I know if the whole reference genomeis covered by long reads? Thanks.