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Package: exonerate (2.2.0-2 and others)

generic tool for pairwise sequence comparison

Exonerate allows you to align sequences using a many alignment models, using either exhaustive dynamic programming, or a variety of heuristics. Much of the functionality of the Wise dynamic programming suite was reimplemented in C for better efficiency. Exonerate is an intrinsic component of the building of the Ensembl genome databases, providing similarity scores between RNA and DNA sequences and thus determining splice variants and coding sequences in general.

An In-silico PCR Experiment Simulation System (see the ipcress man page) is packaged with exonerate.

This package also comes with a selection of utilities for performing simple manipulations quickly on fasta files beyond 2Gb

Tags: Field: Biology, Bioinformatics, Implemented in: C, User Interface: Command Line, Role: Program, Scope: Utility, Purpose: Searching, Supports Format: Plain Text

Other Packages Related to exonerate

  • depends
  • recommends
  • suggests
  • dep: hurd [hurd-i386]
    The GNU Hurd
    also a virtual package provided by hurd-udeb
  • dep: libc0.1 (>= 2.3) [kfreebsd-amd64, kfreebsd-i386]
    GNU C Library: Shared libraries
    also a virtual package provided by libc0.1-udeb
  • dep: libc0.3 (>= 2.10) [hurd-i386]
    GNU C Library: Shared libraries
    also a virtual package provided by libc0.3-udeb
  • dep: libc6 (>= 2.3) [amd64]
    GNU C Library: Shared libraries
    also a virtual package provided by libc6-udeb
    dep: libc6 (>= 2.3.6-6~) [i386]
    dep: libc6 (>= 2.4) [armel, mips, mipsel, powerpc, s390]
    dep: libc6 (>= 2.5) [hppa]
    dep: libc6 (>= 2.5-5) [m68k]
    dep: libc6 (>= 2.6) [sparc]
  • dep: libc6.1 (>= 2.3) [ia64]
    GNU C Library: Shared libraries
    also a virtual package provided by libc6.1-udeb
    dep: libc6.1 (>= 2.4) [alpha]
  • dep: libgcc1 (>= 1:4.4.0) [armel]
    GCC support library
  • dep: libglib2.0-0 (>= 2.12.0)
    The GLib library of C routines
  • sug: wise
    comparison of biopolymers, commonly DNA and protein sequences

Download exonerate

Download for all available architectures
Architecture Version Package Size Installed Size Files
alpha 2.2.0-2 3,588.6 kB10056 kB [list of files]
amd64 2.2.0-2 3,243.7 kB8952 kB [list of files]
armel 2.2.0-2 3,504.7 kB9128 kB [list of files]
hppa 2.2.0-2 3,306.8 kB8556 kB [list of files]
hurd-i386 2.2.0-2 3,093.4 kB8468 kB [list of files]
i386 2.2.0-2 3,096.7 kB8468 kB [list of files]
ia64 2.2.0-2 4,899.9 kB20384 kB [list of files]
kfreebsd-amd64 2.2.0-2 3,242.6 kB8828 kB [list of files]
kfreebsd-i386 2.2.0-2 3,088.3 kB8312 kB [list of files]
m68k (unofficial port) 2.2.0-1 2,391.2 kB7548 kB [list of files]
mips 2.2.0-2 3,470.8 kB10620 kB [list of files]
mipsel 2.2.0-2 3,459.9 kB10624 kB [list of files]
powerpc 2.2.0-2 3,140.3 kB8944 kB [list of files]
s390 2.2.0-2 3,401.8 kB8836 kB [list of files]
sparc 2.2.0-2 2,987.4 kB8592 kB [list of files]