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Remove lines from pileup file that have a mapping coverage of 0
- To use filter pileup, import your data in pileup format.
- Resources: http://samtools.sourceforge.net/pileup.shtml
Use the linked file above as test input.
Parameters Used in App
When the app is run in the Discovery Environment, use the following parameters with the above input file(s) to get the output provided in the next section below.
- Default parameters only, no further configuration needed.
Expect a filtered pileup file as output. For the test case, the output file you will find at the link: http://de.iplantcollaborative.org/dl/d/9C69C131-35A5-4ACA-AA67-476C12B5017C/Filtered.pileup