Samtools 1.7 rmdup remove PCR duplicates

Samtools 1.7 rmdup remove PCR duplicates


Remove PCR duplicate sequencing reads from a BAM file

Quick Start

Test Data

Test data for this app appears directly at the link: 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

Tool Source for App