Genomecomb moved to github on https://github.com/derijkp/genomecomb with documentation on https://derijkp.github.io/genomecomb. For up to date versions, go there. These pages only remain here for the data on the older scientific application (or if someone really needs a long obsolete version of the software)

Covered

Format

cg covered ?options? ?regfile?

Summary

Find number of bases covered by regions in a region file

Description

A region file (any tab separated file with columns chromosome,begin,end) will be parsed, and the number of bases is returned per chromosome and for the total.

Arguments

regfile: file containing regions. If not present, stdin will be used

Options

-n namecol: subtotals are given per identical names (consequtive) in this column, default is to use the chrom(osome) column

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