This is the Linux app named ParDRe whose latest release can be downloaded as ParDRe-rel2.2.5.tar.gz. It can be run online in the free hosting provider OnWorks for workstations.
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ParDRe
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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.).
The tool is implemented with MPI in order to exploit the parallel capabilities of multicore
clusters. It is faster than multithreaded counterparts (end of 2015) for the same number of cores and, thanks to the message-passing technology, it can be executed on clusters.
There also exists a MapReduce counterpart of ParDRe, called MarDRe (see the link above).
UPDATE: From version 2.0.5 ParDRe also provides support to remove only optical duplicates (and leave biologically interesting duplicates) as well as to work with compressed input/output with .gz format.
Audience
Information Technology, Healthcare Industry, Science/Research
User interface
Console/Terminal, Command-line
Programming Language
C++
Categories
This is an application that can also be fetched from https://sourceforge.net/projects/pardre/. It has been hosted in OnWorks in order to be run online in an easiest way from one of our free Operative Systems.
