ParDRe

From MetaCentrum
Jump to navigation Jump to search

Description

ParDRe is a parallel tool to remove duplicate reads. Duplicate reads can be seen as identical or nearly identical sequences with some mismatches. This tool will let the users to avoid the analysis of not necessary reads, reducing the time of subsequent procedures with the dataset (e.g., assemblies, mappings, etc.).

Availability

Available modules:

pardre-2.2.5

Licence

GNU GPL v3

Use

You can load the module via the command and use the application:

module add pardre-2.2.5
ParDRe -h

It can use MPI to parallelize calculations, e.g. on 8 CPU threads:

mpirun -n 8 ParDRe ...

Documentation

https://sourceforge.net/projects/pardre/ (PDF manual is part of package with source code)

Program manager

Installed and maintained by Gunnera (diskuse) meta@cesnet.cz

Homepage

https://sourceforge.net/projects/pardre/