Galaxy |

Repository revision

Repository samtools_rmdup

Name: samtools_rmdup

Owner: devteam

Synopsis: Remove PCR duplicates

Detailed description:

This tool uses the SAMtools toolkit to remove potential PCR duplicates:
if multiple read pairs have identical external coordinates, only retain the pair
with highest mapping quality. In the paired-end mode, this command ONLY works with
FR orientation and requires ISIZE is correctly set. It does not work for unpaired
reads (e.g. two ends mapped to different chromosomes or orphan reads).

Content homepage: http://www.htslib.org/

Development repository: https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools/samtools_rmdup

Link to this repository: https://toolshed.g2.bx.psu.edu/view/devteam/samtools_rmdup/586f9e1cdb2b

Clone this repository: hg clone https://toolshed.g2.bx.psu.edu/repos/devteam/samtools_rmdup

Type: unrestricted

Revision: 5:586f9e1cdb2b

This revision can be installed: True

Times cloned / installed: 9528

Name	Description	Version	Minimum Galaxy Version
Valid tools - click the name to preview the tool and use the pop-up menu to inspect all metadata
RmDup View tool metadata	remove PCR duplicates	2.0.1	16.01