Name: mrfast
Owner: Bilkent Bioinformatics and Computational Genomics Group
Description: micro-read Fast Alignment Search Tool
Created: 2014-10-30 17:06:48.0
Updated: 2017-02-18 06:34:57.0
Pushed: 2016-01-29 20:01:46.0
Homepage: null
Size: 48
Language: C
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mrFAST is a read mapper that is designed to map short reads to reference genome with a special emphasis on the discovery of structural variation and segmental duplications. mrFAST maps short reads with respect to user defined error threshold, including indels up to 4+4 bp. This manual, describes how to choose the parameters and tune mrFAST with respect to the library settings. mrFAST is designed to find 'all' mappings for a given set of reads, however it can return one “best” map location if the relevant parameter is invoked.
NOTE: mrFAST is developed for Illumina, thus requires all reads to be at the same length. For paired-end reads, lengths of mates may be different from each other, but each “side” should have a uniform length.