cancerit / BRASS

Breakpoints via assembly - Identifies breaks and attempts to assemble rearrangements in whole genome sequencing data.
GNU Affero General Public License v3.0
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bottle-necks: investigate #32

Closed keiranmraine closed 7 years ago

keiranmraine commented 8 years ago

There are a couple of bottle-necks in the filter step, abs_bkp and remap_micro.

These are only a problem in very noisy samples (e.g. 400k+ events on entry to abs_bkp) but can push the runtime into weeks/months so need to be investigated.

Likely that the filter step needs to be broken up as the individual elements in this case have variable resource requirements.