FASTX-Toolkit

Originally submitted by Wvandelm - wouter.vandelm@vib.be.

Name: FASTX-Toolkit
Link: FASTX home page
Platform: command line tool for Linux (64bit), Linux (32bit), OpenSolaris 2009.6, FreeBSD (64bit) MacOS X 10.5.8 (32bit); Galaxy files can be downloaded as well
Field: tools

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Purpose

The FASTX-Toolkit is a collection of command line tools for Short-Reads FASTA/FASTQ files preprocessing. Next-Generation sequencing machines usually produce FASTA or FASTQ files, containing multiple short-reads sequences (possibly with quality information). The main processing of such FASTA/FASTQ files is mapping (aka aligning) the sequences to reference genomes or other databases using specialized programs. Example of such mapping programs are: Blat, SHRiMP, LastZ, MAQ and many many others. However, it is sometimes more productive to preprocess the FASTA/FASTQ files before mapping the sequences to the genome - manipulating the sequences to produce better mapping results. The FASTX-Toolkit tools perform some of these preprocessing tasks.

Users within VIB

Name	Email Address
Wout Van Delm	wouter.vandelm@vib.be