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Good question. From memory, I think percent_overlap_size_track is the proportion of nucleotides in 'segments' that overlap annotations within the workspace.
It might well be a bug, are your segments non-overlapping?
There is also the --ignore-segment-tracks option, which merges all the segments. The 46% might mean that 46% of the nucleotides are in DUST segments, though I then would assume the total to be 100%. Need to go through the code to remember what happened.
Hi AndreasHeger,
Problem:
--workspace: BED file of all regions in genome (excluding regions composed of N's)
--segments: BED file of annotations in subset of contigs
--annotation: BED file of annotations across the whole genome (same as above but for whole genome)
The output I get when running:
is
I am confused:
percent_overlap_size_track
and co be 100% for all?Thank you in advance.
cheers,
dom
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