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.

Project Activity

See All Activity >

Categories

Bio-Informatics

License

GNU General Public License version 3.0 (GPLv3)

Follow ParDRe

ParDRe Web Site

Other Useful Business Software
The Secure Workspace for Remote Work Icon
The Secure Workspace for Remote Work

Venn isolates and protects work from any personal use on the same computer, whether BYO or company issued.

Venn is a secure workspace for remote work that isolates and protects work from any personal use on the same computer. Work lives in a secure local enclave that is company controlled, where all data is encrypted and access is managed. Within the enclave – visually indicated by the Blue Border around these applications – business activity is walled off from anything that happens on the personal side. As a result, work and personal uses can now safely coexist on the same computer.
Rate This Project
Login To Rate This Project

User Reviews

Be the first to post a review of ParDRe!

Additional Project Details

Operating Systems

Linux

Intended Audience

Information Technology, Healthcare Industry, Science/Research

User Interface

Console/Terminal, Command-line

Programming Language

C++

Related Categories

C++ Bio-Informatics Software

Registered

2015-11-19