progressivemauve_1.2.0+4713-2_amd64.deb


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Description

progressivemauve - multiple genome alignment algorithms

Property Value
Distribution Ubuntu 16.04 LTS (Xenial Xerus)
Repository Ubuntu Universe amd64
Package name progressivemauve
Package version 1.2.0+4713
Package release 2
Package architecture amd64
Package type deb
Installed size 5.09 KB
Download size 829.50 KB
Official Mirror archive.ubuntu.com
The mauveAligner and progressiveMauve alignment algorithms have been
implemented as command-line programs included with the downloadable Mauve
software.  When run from the command-line, these programs provide options
not yet available in the graphical interface.
Mauve is a system for efficiently constructing multiple genome alignments
in the presence of large-scale evolutionary events such as rearrangement
and inversion. Multiple genome alignment provides a basis for research
into comparative genomics and the study of evolutionary dynamics.  Aligning
whole genomes is a fundamentally different problem than aligning short
sequences.
Mauve has been developed with the idea that a multiple genome aligner
should require only modest computational resources. It employs algorithmic
techniques that scale well in the amount of sequence being aligned. For
example, a pair of Y. pestis genomes can be aligned in under a minute,
while a group of 9 divergent Enterobacterial genomes can be aligned in
a few hours.
Mauve computes and interactively visualizes genome sequence comparisons.
Using FastA or GenBank sequence data, Mauve constructs multiple genome
alignments that identify large-scale rearrangement, gene gain, gene loss,
indels, and nucleotide substutition.
Mauve is developed at the University of Wisconsin.

Alternatives

Package Version Architecture Repository
progressivemauve_1.2.0+4713-2_i386.deb 1.2.0+4713 i386 Ubuntu Universe
progressivemauve - - -

Requires

Name Value
libboost-filesystem1.58.0 -
libboost-iostreams1.58.0 -
libboost-program-options1.58.0 -
libboost-system1.58.0 -
libc6 >= 2.14
libgcc1 >= 1:4.1.1
libgenome-1.3-0v5 -
libmems-1.6-1v5 -
libmuscle-3.7-1 -
libstdc++6 >= 5.2

Replaces

Name Value
mauvealigner <= 1.2.0+4713-1

Download

Type URL
Binary Package progressivemauve_1.2.0+4713-2_amd64.deb
Source Package progressivemauve

Install Howto

  1. Update the package index:
    # sudo apt-get update
  2. Install progressivemauve deb package:
    # sudo apt-get install progressivemauve

Files

Path
/usr/bin/addUnalignedIntervals
/usr/bin/alignmentProjector
/usr/bin/backbone_global_to_local
/usr/bin/bbAnalyze
/usr/bin/bbFilter
/usr/bin/coordinateTranslate
/usr/bin/createBackboneMFA
/usr/bin/extractBCITrees
/usr/bin/getAlignmentWindows
/usr/bin/getOrthologList
/usr/bin/makeBadgerMatrix
/usr/bin/mauveAligner
/usr/bin/mauveToXMFA
/usr/bin/mfa2xmfa
/usr/bin/progressiveMauve
/usr/bin/projectAndStrip
/usr/bin/randomGeneSample
/usr/bin/repeatoire
/usr/bin/scoreAlignment
/usr/bin/stripGapColumns
/usr/bin/stripSubsetLCBs
/usr/bin/toGrimmFormat
/usr/bin/toMultiFastA
/usr/bin/toRawSequence
/usr/bin/uniqueMerCount
/usr/bin/uniquifyTrees
/usr/bin/xmfa2maf
/usr/share/doc/progressivemauve/changelog.Debian.gz
/usr/share/doc/progressivemauve/copyright
/usr/share/man/man1/addUnalignedIntervals.1.gz
/usr/share/man/man1/alignmentProjector.1.gz
/usr/share/man/man1/backbone_global_to_local.1.gz
/usr/share/man/man1/bbAnalyze.1.gz
/usr/share/man/man1/bbFilter.1.gz
/usr/share/man/man1/coordinateTranslate.1.gz
/usr/share/man/man1/createBackboneMFA.1.gz
/usr/share/man/man1/extractBCITrees.1.gz
/usr/share/man/man1/getAlignmentWindows.1.gz
/usr/share/man/man1/getOrthologList.1.gz
/usr/share/man/man1/makeBadgerMatrix.1.gz
/usr/share/man/man1/mauveAligner.1.gz
/usr/share/man/man1/mauveToXMFA.1.gz
/usr/share/man/man1/mfa2xmfa.1.gz
/usr/share/man/man1/progressiveMauve.1.gz
/usr/share/man/man1/projectAndStrip.1.gz
/usr/share/man/man1/randomGeneSample.1.gz
/usr/share/man/man1/repeatoire.1.gz
/usr/share/man/man1/scoreAlignment.1.gz
/usr/share/man/man1/stripGapColumns.1.gz
/usr/share/man/man1/stripSubsetLCBs.1.gz
/usr/share/man/man1/toGrimmFormat.1.gz
/usr/share/man/man1/toMultiFastA.1.gz
/usr/share/man/man1/toRawSequence.1.gz
/usr/share/man/man1/uniqueMerCount.1.gz
/usr/share/man/man1/uniquifyTrees.1.gz
/usr/share/man/man1/xmfa2maf.1.gz

Changelog

2015-08-20 - Andreas Tille <tille@debian.org>
progressivemauve (1.2.0+4713-2) unstable; urgency=medium
* Rebuild against gcc-5 ported libmems
Closes: #795239
2015-05-20 - Andreas Tille <tille@debian.org>
progressivemauve (1.2.0+4713-1) unstable; urgency=medium
* Initial release to Debian (Closes: #783101)
2015-04-19 - Andreas Tille <tille@debian.org>
mauvealigner (1.2.0+4713-0ubuntu1) trusty; urgency=low
* Initial upload to Debian Med PPA

See Also

Package Description
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proj-data_4.9.2-2_all.deb Cartographic projection filter and library (datum package)
proj-ps-doc_4.3.3-4_all.deb PostScript docs for cartographic projection filters and library
project-x_0.90.4dfsg-0ubuntu5_all.deb DVB demuxing tool
projectcenter.app_0.6.1-1_amd64.deb IDE for GNUstep Development
projectl_1.001.dfsg1-8_amd64.deb sword action shooting
projectm-data_2.1.0+dfsg-3build1_all.deb Advanced Milkdrop-compatible music visualization library - data
projectm-jack_2.1.0+dfsg-3build1_amd64.deb projectM JackAudio module
projectm-pulseaudio_2.1.0+dfsg-3build1_amd64.deb projectM PulseAudio module
prolix_0.03-1_all.deb tool to interactively filter chatty command output
prolog-el_1.25-2_all.deb Emacs major mode for editing Prolog code
prometheus-cli_0.3.0-1_amd64.deb Prometheus command line interface
prometheus-node-exporter_0.11.0+ds-1_amd64.deb Prometheus exporter for machine metrics
prometheus-pushgateway_0.2.0+ds-3_amd64.deb Prometheus exporter for ephemereal jobs
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