Is there a software tool that reports a measure of the degree of non-uniformity in depth of Illumina sequencing coverage across a de novo assembled genome (against which the Illumina reads are mapped back)?
I have the PE read library (2150bp HiSeq4000), the *de novo assembled genome, and the BAM file for mapping of former to the latter - and I have 290 such data points. I am curious to know how many of these 290 have more versus less uniform coverage depth across their respective genomes.
I came across a paper - https://genomebiology.biomedcentral.com/articles/10.1186/gb-2013-14-5-r51, but no software tool name per se. Some of my assembly woes may mirror those from an earlier post at Any advice for a de novo genome assembly .
To reiterate: Is there a software (like a supplement to something like BBTool's bbnorm) that can help visualize quickly which of my genome assemblies are built on the basis of more uniform coverage depth?