bfast-0.7.0a-2-omv2013.0.i586.rpm


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Description

bfast - Blat-like Fast Accurate Search Tool

Property Value
Distribution OpenMandriva Lx 3.0
Repository OpenMandriva Contrib Release i586
Package name bfast
Package version 0.7.0a
Package release 2-omv2013.0
Package architecture i586
Package type rpm
Installed size 2.50 MB
Download size 648.85 KB
Official Mirror abf-downloads.openmandriva.org
BFAST facilitates the fast and accurate mapping of short reads to
reference sequences.  Some advantages of BFAST include:
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.

Alternatives

Package Version Architecture Repository
bfast-0.7.0a-2-omv2013.0.x86_64.rpm 0.7.0a x86_64 OpenMandriva Contrib Release
bfast - - -

Requires

Name Value
libbz2.so.1 -
libc.so.6 -
libc.so.6(GLIBC_2.0) -
libc.so.6(GLIBC_2.1) -
libc.so.6(GLIBC_2.3) -
libc.so.6(GLIBC_2.7) -
libm.so.6 -
libm.so.6(GLIBC_2.0) -
libpthread.so.0 -
libpthread.so.0(GLIBC_2.0) -
libpthread.so.0(GLIBC_2.1) -
libz.so.1 -
libz.so.1(ZLIB_1.2.3.3) -
perl(Cwd) -
perl(Data::Dumper) -
perl(File::Path) -
perl(Getopt::Long) -
perl(Getopt::Std) -
perl(Pod::Usage) -
perl(XML::Simple) -

Provides

Name Value
bfast == 0.7.0a-2:2013.0

Download

Type URL
Binary Package bfast-0.7.0a-2-omv2013.0.i586.rpm
Source Package bfast-0.7.0a-2.src.rpm

Install Howto

  1. Enable OpenMandriva Contrib Release repository on Install and Remove Software
  2. Update packages list:
    # urpmi.update -a
  3. Install bfast rpm package:
    # urpmi bfast

Files

Path
/usr/bin/balignmentscoredistribution
/usr/bin/balignsim
/usr/bin/bevalsim
/usr/bin/bfast
/usr/bin/bfast.resubmit.pl
/usr/bin/bfast.submit.pl
/usr/bin/bgeneratereads
/usr/bin/bindexdist
/usr/bin/bindexhist
/usr/bin/bmfmerge
/usr/bin/brepeat
/usr/bin/btestindexes
/usr/bin/ill2fastq.pl
/usr/bin/solid2fastq
/usr/share/doc/bfast/AUTHORS
/usr/share/doc/bfast/ChangeLog
/usr/share/doc/bfast/LICENSE
/usr/share/doc/bfast/NEWS
/usr/share/doc/bfast/README
/usr/share/doc/bfast/bfast-book.pdf

Changelog

2011-11-28 - Alexander Khrukin <akhrukin@mandriva.org> 0.7.0a-1
+ Revision: 734971
- imported package bfast

See Also

Package Description
bfc-0.2-7-omv2015.0.noarch.rpm An alternative ABF client
bfgminer-3.3.0-1-omv2013.0.i586.rpm A bitcoin miner
bfr-1.6-7-omv2013.0.i586.rpm General-purpose command-line pipe buffer
bgpq3-0.1.21-2-omv2015.0.i586.rpm BGP filtering automation for cisco and juniper routers
biabam-0.9.7-9-omv2015.0.noarch.rpm Bash Attachment Mailer
bib2hal-2.3-5-omv2015.0.noarch.rpm Massive import BibTeX article into HAL
bib2html-6.7-2-omv2015.0.noarch.rpm BibTeX to HTML translator
bib2xhtml-2.35-3-omv2015.0.noarch.rpm A program for converting BibTeX files into XHTML 1.0
bibletime-2.9.2-1-omv2013.0.i586.rpm Easy to use Bible study tool
bibtool-2.55-1-omv2014.1.i586.rpm A Tool for manipulating BibTeX data bases
bibutils-4.12-2-omv2015.0.i586.rpm Inter-convert between various bibliography formats
biew-6.1.0-5-omv2015.0.i586.rpm Console hex viewer/editor and disassembler
bigloo-3.8c-2-omv2014.1.i586.rpm Compiler for the Scheme programming language
bigloo-doc-3.8c-2-omv2014.1.i586.rpm Bigloo documentation
billreminder-0.4.0-3-omv2013.0.noarch.rpm Simple application to remind you to pay your bills
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