PLAST : Parallel Local Alignment Search Tool for Database Comparison

PLAST is a free software distributed under the terms of the

CECILL version 2 License

Overview

• PLAST is a parallel alignment search tool for comparing large protein banks.

• PLAST runs 3 to 5 times faster than the NCBI-BLAST software when processing large amount of data.

• The software is freely available for download under the CECILL version 2 License.

The following features are currently available

• Protein vs protein (plastp), protein vs nucleotide (tplastn), nucleotide vs protein (plastx) and nucleotide vs nucleotide (tplastx) searches

• Query filtering using SEG low complexity filters

• Karlin-Altschul alignment statistics

• Composition-based score adjustments as in Bioinformatics 21:902-911 for plastp and tplastn.

Download

Download Binaries

PLAST executable is available for the following platforms:

• Linux : gcc [SSE-32bit] [SSE-64bit]

• Windows : gcc [SSE-32bit] [SSE-64bit]

• MacOS X : gcc [SSE-32bit] (Intel)

Download Source

The PLAST source code (C) is available under the terms of CECILL version 2 License.

• source : [tar.gz] [zip]

You can view the readme file

Subset seeds

Subset seeds have been developped at the INRIA SEQUOIA team.

The script [pl] converts seeds alphabets and seed patterns into subset seeds.

Authors

PLAST is developed whithin the bioinformatics Symbiose group at IRISA-INRIA, Rennes, France.

Current and former development contributors

• Dominique Lavenier (lavenier@irisa.fr)

• Van Hoa Nguyen (vhnguyen@irisa.fr)