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This repository has been archived by the owner on Sep 12, 2018. It is now read-only.
Ah, so it looks like depth is calculated using the "read count" optional parameter (RC:i:[some int here]) as the integer in the RC divided by the length of the sequence. Or at least that's how Bandage does that. If a sequence doesn't have a read count parameter then its depth is assumed as 1.
Since I'm not entirely sure what the implications of this optional parameter are or of assuming a uniform read depth of 1 for nodes, I think I'm going to stick with just giving all GFA sequences a "N/A" depth in the viewer for now. I can come back to this later and reevaluate my approach, but there are more important things to focus on for now.
Figure out how to do it and do it (by just adding the depth info to the .db file).
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