Package: bowtie (0.12.7-3)

[ Source: bowtie  ]

ultrafast memory-efficient short read aligner

This package addresses the problem to interpret the results from the latest (2010) DNA sequencing technologies. Those will yield fairly short stretches and those cannot be interpreted directly. It is the challenge for tools like Bowtie to give a chromosomal location to the short stretches of DNA sequenced per run.

Bowtie aligns short DNA sequences (reads) to the human genome at a rate of over 25 million 35-bp reads per hour. Bowtie indexes the genome with a Burrows-Wheeler index to keep its memory footprint small: typically about 2.2 GB for the human genome (2.9 GB for paired-end).

Tags: Field: Biology, Implemented in: C++, User Interface: interface::commandline, role::program, Scope: Utility, Purpose: Analysing, use::comparing, works-with::biological-sequence

Other Packages Related to bowtie

• dep: libc0.1 (>= 2.4) [kfreebsd-amd64, kfreebsd-i386]

  Embedded GNU C Library: Shared libraries
  also a virtual package provided by libc0.1-udeb

• dep: libc6 (>= 2.13) [s390x]

  Embedded GNU C Library: Shared libraries
  also a virtual package provided by libc6-udeb

  dep: libc6 (>= 2.13-28) [armhf]

  dep: libc6 (>= 2.4) [amd64, armel, i386, s390]

  dep: libc6 (>= 2.6) [powerpc, sparc]

• dep: libc6.1 (>= 2.3.4) [ia64]

  Embedded GNU C Library: Shared libraries
  also a virtual package provided by libc6.1-udeb

• dep: libgcc1 (>= 1:4.1.1) [not armel, armhf, powerpc, s390]

  GCC support library

  dep: libgcc1 (>= 1:4.2.1) [powerpc, s390]

  dep: libgcc1 (>= 1:4.4.0) [armel, armhf]

• dep: libstdc++6 (>= 4.4.0)

  GNU Standard C++ Library v3

• dep: libunwind7 [ia64]

  A library to determine the call-chain of a program - runtime

• sug: bowtie-examples

  Examples for bowtie, the ultrafast memory-efficient short read aligner

Download bowtie

Download for all available architectures

Architecture	Package Size	Installed Size	Files
amd64	1,254.6 kB	3,199.0 kB	[list of files]
armel	1,263.6 kB	2,763.0 kB	[list of files]
armhf	1,175.1 kB	2,147.0 kB	[list of files]
i386	1,251.1 kB	3,291.0 kB	[list of files]
ia64	1,977.8 kB	6,568.0 kB	[list of files]
kfreebsd-amd64	1,254.3 kB	3,164.0 kB	[list of files]
kfreebsd-i386	1,250.7 kB	3,256.0 kB	[list of files]
powerpc	1,294.7 kB	3,064.0 kB	[list of files]
s390	1,176.6 kB	2,922.0 kB	[list of files]
s390x	1,461.0 kB	3,450.0 kB	[list of files]
sparc	1,267.2 kB	3,062.0 kB	[list of files]