mapsembler2_2.1.6+dfsg-1_amd64.deb


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Description

mapsembler2 - bioinformatics targeted assembly software

Property Value
Distribution Debian 8 (Jessie)
Repository Debian Main amd64
Package name mapsembler2
Package version 2.1.6+dfsg
Package release 1
Package architecture amd64
Package type deb
Installed size 454 B
Download size 272.52 KB
Official Mirror ftp.br.debian.org
Mapsembler2 is a targeted assembly software.
It takes as input a set of NGS raw reads (fasta or fastq, gzipped or not)
and a set of input sequences (starters).
It first determines if each starter is read-coherent, e.g. whether reads
confirm the presence of each starter in the original sequence.
Then for each read-coherent starter, Mapsembler2 outputs its sequence
neighborhood as a linear sequence or as a graph, depending on the user choice.
Mapsembler2 may be used for (not limited to):
- Validate an assembled sequence (input as starter), e.g. from a de
Bruijn graph assembly where read-coherence was not enforced.
- Checks if a gene (input as starter) has an homolog in a set of reads
- Checks if a known enzyme is present in a metagenomic NGS read set.
- Enrich unmappable reads by extending them, possibly making them mappable
- Checks what happens at the extremities of a contig
- Remove contaminants or symbiont reads from a read set

Alternatives

Package Version Architecture Repository
mapsembler2_2.1.6+dfsg-1_i386.deb 2.1.6+dfsg i386 Debian Main
mapsembler2 - - -

Requires

Name Value
bc -
libc6 >= 2.14
libgcc1 >= 1:4.1.1
libstdc++6 >= 4.4.0
zlib1g >= 1:1.2.3.4

Download

Type URL
Binary Package mapsembler2_2.1.6+dfsg-1_amd64.deb
Source Package mapsembler2

Install Howto

  1. Update the package index:
    # sudo apt-get update
  2. Install mapsembler2 deb package:
    # sudo apt-get install mapsembler2

Files

Path
/usr/bin/mapsembler
/usr/share/doc/mapsembler2/README.Debian
/usr/share/doc/mapsembler2/changelog.Debian.gz
/usr/share/doc/mapsembler2/copyright
/usr/share/doc/mapsembler2/sample_example/fragments.fa
/usr/share/doc/mapsembler2/sample_example/reads.fa.gz
/usr/share/man/man1/mapsembler.1.gz

Changelog

2014-05-29 - Olivier Sallou <osallou@debian.org>
mapsembler2 (2.1.6+dfsg-1) unstable; urgency=medium
* New upstream release
2014-02-21 - Olivier Sallou <osallou@debian.org>
mapsembler2 (2.1.2+dfsg-1) unstable; urgency=low
* New upstream release
2014-02-21 - Olivier Sallou <osallou@debian.org>
mapsembler2 (2.0.31-1) unstable; urgency=low
* New upstream release 
2014-02-06 - Olivier Sallou <osallou@debian.org>
mapsembler2 (2.0.5+dfsg-2) unstable; urgency=low
* d/control: Add missing build dep
2014-02-01 - Olivier Sallou <osallou@debian.org>
mapsembler2 (2.0.5+dfsg-1) unstable; urgency=medium
* First debian package (Closes: #737099).

See Also

Package Description
mapserver-bin_6.4.1-5+deb8u3_amd64.deb MapServer utilities
mapserver-doc_6.4.1-5+deb8u3_all.deb documentation for MapServer
maptool_0.5.0~svn5900+dfsg.1-1_amd64.deb Converts OpenStreetMap maps to Navit
maptransfer-server_0.3-1_all.deb upload/download maps to/from a VALVe game server (Server)
maptransfer_0.3-1_all.deb upload/download maps to/from a VALVe game server (Client)
maq_0.7.1-5_amd64.deb maps short fixed-length polymorphic DNA sequence reads to reference sequences
maqview_0.2.5-6_amd64.deb graphical read alignment viewer for short gene sequences
marble-data_4.14.2-1_all.deb data files for Marble
marble-mobile_4.14.2-1_amd64.deb globe and map widget for mobile form factors
marble-plugins_4.14.2-1_amd64.deb plugins for Marble
marble-qt_4.14.2-1_amd64.deb globe and map widget (no KDE dependencies)
marble-touch_4.14.2-1_amd64.deb globe and map widget for tablets
marble_4.14.2-1_amd64.deb globe and map widget
marco-common_1.8.2+dfsg1-6_all.deb lightweight GTK+ window manager for MATE (common files)
marco_1.8.2+dfsg1-6_amd64.deb lightweight GTK+ window manager for MATE
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