treangen/metAMOS — Issue #35: Parsing of MetaGeneMark output slow
Author: treangen
Created: 2012-02-09 18:24:50+00:00
State: open

Inefficient parsing of GeneMark output to create gene files & gene coverage file results in a bottleneck in the pipeline, requiring an hour (or more) to parse out 50-100K ORFs from the output file. Need to look closer into this to see if we can simply generate the files via the command line (don't think so) or more efficient parsing of output.