Samtools 1.7 rmdup remove PCR duplicates
- de-confluence
- amcooksey (Unlicensed)
- lgardine
Owned by de-confluence
Samtools 1.7 rmdup remove PCR duplicates
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Remove PCR duplicate sequencing reads from a BAM file
Quick Start
- To use remove duplicates, import your data in sorted BAMÂ format.
- Resources:Â http://samtools.sourceforge.net/samtools.shtml
Test Data
Test data for this app appears directly at the link:Â Community_data -> iplantcollaborative -> example_data -> samtools_rmdup
Input File(s)
Use the 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.
Output File(s)
Expect a filtered BAM file as output. For the test case, the output file you will find is duplicates_removed.bam