Read Coverage On Structure

Question

[Nicolas Rosewick]

Hi,

Is there a tool to draw the read coverage on a secondary structure?

Thanks

Answer 1

[ALchEmiXt]

You can use Artemis (or any other track visualisation tool) to load the genome, to load the mapping as for instance bam files or just the coverage scores per base and combine these with annotation plots. Which can be ORFs but also secondary or any other annotation track you want to load.

Artemis of Sanger can handle (not too large) but considerable sizes of data sets and annotation tracks can be read in a variety of formats (incl EMBL) and/or just tab-delimited score files or gff...

Or do I misunderstand the question?