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Speed: enables billions of short reads to be mapped quickly.
Accuracy: A priori probabilities for mapping reads with defined set of variants.
An easy way to measurably tune accuracy at the expense of speed.
Specifically, BFAST was designed to facilitate whole-genome resequencing, where mapping billions of short reads with variants is of utmost importance.
BFAST supports both Illumina and ABI SOLiD data, as well as any other Next-Generation Sequencing Technology (454, Helicos), with particular emphasis on sensitivity towards errors, SNPs and especially indels. Other algorithms take short-cuts by ignoring errors, certain types of variants (indels), and even require further alignment, all to be the "fastest" (but still not complete). BFAST is able to be tuned to find variants regardless of the error-rate, polymorphism rate, or other factors.
Welcome to bfast. bfast is copyrighted software. Please see the file LICENSE for details. For manual pages, including installation directions, please see: manual/bfast-book.pdf
2008/03/01 bfast conceived. 2008/07/01 bfast first alpha version. 2008/09/27 bfast first alpha version released to public.
BFAST -- History of visible changes. See LICENSE for details See COPYING for copying conditions. Please send bfast bug reports to email@example.com Version 0.6.4d * adding '-z' option in 'bfast postprocess' to choose a random best scoring alignment when used with '-z 3'. * MD tag in the SAM output modified to agree with 'samtools calmd'. Version 0.6.4c * bug fixed encountering more»
Nils Homer <firstname.lastname@example.org> Barry Merriman <email@example.com> Stanley F. Nelson <firstname.lastname@example.org more»
GNU GENERAL PUBLIC LICENSE Version 2, June 1991 Copyright (C) 1989, 1991 Free Softw more»