wigeon_20101212+dfsg1-2_all.deb


Advertisement

Description

wigeon - reimplementation of the Pintail 16S DNA anomaly detection utility

Property Value
Distribution Debian 10 (Buster)
Repository Debian Main i386
Package filename wigeon_20101212+dfsg1-2_all.deb
Package name wigeon
Package version 20101212+dfsg1
Package release 2
Package architecture all
Package type deb
Category science
Homepage http://microbiomeutil.sourceforge.net/
License -
Maintainer Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Download size 29.32 KB
Installed size 168.00 KB
WigeoN examines the sequence conservation between a query and a trusted
reference sequence, both in NAST alignment format. Based on the sequence
identity between the query and the reference sequence, there is an
expected amount of variation among the alignment. If the observed
variation is greater than the 95% quantile of the distribution of
variation observed between non-anomalous sequences, then it is flagged
as an anomaly.
WigeoN is a flexible command-line based reimplementation of the Pintail
algorithm Appl Environ Microbiol. 2005 Dec;7112:7724-36.
WigeoN is useful for flagging chimeras and anomalies only in near
full-length 16S rRNA sequences. WigeoN lacks sensitivity with sequences
less than 1000 bp.
To run WigeoN, you need NAST-formatted sequences generated by the
nast-ier utility.
WigeoN is  part of the microbiomeutil suite.

Alternatives

Package Version Architecture Repository
wigeon_20101212+dfsg1-2_all.deb 20101212+dfsg1 all Debian Main
wigeon - - -

Requires

Name Value
microbiomeutil-data -

Download

Type URL
Mirror ftp.br.debian.org
Binary Package wigeon_20101212+dfsg1-2_all.deb
Source Package microbiomeutil

Install Howto

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

Files

Path
/usr/bin/cm_to_wigeon
/usr/bin/wigeon
/usr/lib/WigeoN/README
/usr/lib/WigeoN/WigeoN.pl
/usr/lib/WigeoN/run_CM_to_WigeoN.pl
/usr/lib/WigeoN/run_WigeoN.pl
/usr/lib/WigeoN/PerlLib/BHStats.pm
/usr/lib/WigeoN/PerlLib/CdbTools.pm
/usr/lib/WigeoN/PerlLib/Fasta_reader.pm
/usr/lib/WigeoN/data/DE_quantiles.dat
/usr/lib/WigeoN/data/eco.prokMSA
/usr/lib/WigeoN/data/rRNA16S.gold.NAST_ALIGNED.fasta.cons
/usr/lib/WigeoN/util/all_vs_all_WigeoN.pl
/usr/lib/WigeoN/util/apply_eco_Mask.pl
/usr/lib/WigeoN/util/compute_quant_bins.pl
/usr/lib/WigeoN/util/eco.prokMSA
/usr/lib/WigeoN/util/eco_nast_freq.pl
/usr/lib/WigeoN/util/makeConservationProfile.pl
/usr/lib/WigeoN/util/smooth.pl
/usr/share/doc/wigeon/README
/usr/share/doc/wigeon/changelog.Debian.gz
/usr/share/doc/wigeon/copyright
/usr/share/doc/wigeon/examples
/usr/share/man/man1/cm_to_wigeon.1.gz
/usr/share/man/man1/wigeon.1.gz

Changelog

2018-07-05 - Andreas Tille <tille@debian.org>
microbiomeutil (20101212+dfsg1-2) unstable; urgency=low
[ Steffen Moeller ]
* debian/upstream/metadata:
- Added references to registries
- yamllint cleanliness
[ Andreas Tille ]
* Remove unneeded get-orig-source target
* Remove Tim Booth from Uploaders (thanks for your work, Tim)
* Secure URI in watch file
* debhelper 11
* Point Vcs fields to salsa.debian.org
* Standards-Version: 4.1.4
* hardening=+all
2016-01-20 - Andreas Tille <tille@debian.org>
microbiomeutil (20101212+dfsg1-1) unstable; urgency=low
* debian/copyright: s/BSD-like/BSD-3-clause/
* Moved debian/upstream to debian/upstream/metadata
* cme fix dpkg-control
* Cleanup d/rules
* Fix build time tests and run these
* Add doc-base file
* d/watch: add missing repacksuffix
* Moved packaging from SVN to Git
* Cleaning up log files from past test runs
* Add autopkgtest
2013-07-22 - Andreas Tille <tille@debian.org>
microbiomeutil (20101212+dfsg-1) unstable; urgency=low
* Initial release to Debian (Closes: #711086)
* Remove copyrighted logo images from upstream tarball (the logo is
only used in very short doc which works perfectly without this image)
* debian/control: Use anonscm Vcs addresses
2013-06-05 - Tim Booth <tbooth@ceh.ac.uk>
microbiomeutil (20101212-1ubuntu8) precise; urgency=low
* Bio-Linux rebuild with Andreas' fixes  
* ChimeraSlayer run from QIIME was not working.  Need to pre-compute
index files and add them to RESOURCES directory
* Also added missing direct dep on blast2
2013-06-04 - Andreas Tille <tille@debian.org>
microbiomeutil (20101212-2) unstable; urgency=low
* debian/copyright: DEP5 copyright
* debian/control:
- Added myself to uploaders
- Priority: optional (as per Debian Med policy)
- Droped DM-Upload-Allowed
- Standards-Version: 3.9.4
- Debhelper 9 (also d/compat)
- Dropped explicit quilt Build-Dependends
- better formatting
- Enhance long descriptions
* debian/rules:
- remove "--with quilt" because this is specified in source format
- Use xz compression for binaries
* debian/rules, debian/*.install, debian/*.links:
Rather use the usual debhelper input files
* Remove unneeded debian/README.* files and create debian/upstream
file with citation information
* Removed debian/{ChimeraSlayer,microbiomeutil.install} because
unneeded
* debian/*.1: Wrote manpages
* debian/microbiomeutil.links: Synonyms with camel case spelling
as in the provided documentation
* debian/patches/hardening.patch: Enable propagation of hardening options
2013-06-03 - Tim Booth <tbooth@ceh.ac.uk>
microbiomeutil (20101212-1ubuntu6) lucid; urgency=low
* Another patch needed to Perl code due to inappropriate use of
FindBin 
* Move to /usr/lib rather than /usr/share as per Lintian warnings.
* Set --with quilt on dh.  (Possibly not needed now?)
* Added better descriptions in debian/control
2011-04-11 - Tim Booth <tbooth@ceh.ac.uk>
microbiomeutil (20101212-1ubuntu1) lucid; urgency=low
* Split package into 4 binary packages.
2011-03-30 - Steffen Moeller <moeller@debian.org>
microbiomeutil (2010-11-1) UNRELEASED; urgency=low
* New upstream
2010-12-02 - Steffen Moeller <moeller@debian.org>
microbiomeutil (2010-11-02-1) UNRELEASED; urgency=low
* Initial packaging

See Also

Package Description
wiggle_1.1-1_i386.deb apply patches with conflicting changes
wiipdf_1.4-2+b2_i386.deb present a PDF file using your wiimote
wiki2beamer_0.9.5-1_all.deb Tool to create LaTeX beamer presentations in wiki syntax
wikipedia2text_0.13-1_all.deb displays Wikipedia articles on the command line
wikitrans_1.3-1_all.deb MediaWiki markup translator (utility)
wildmidi_0.4.3-1_i386.deb software MIDI player
wiliki_0.6.2-1_all.deb Yet another Wiki clone written in Scheme
wily_0.13.41-7.3_i386.deb A work-alike of the Acme programming environment for Plan 9
wims-help_4.01-3_all.deb help files for wims
wims-java-applets_4.15d~dfsg1-3_all.deb applets for modules used by WIMS
wims-modules_4.15d~dfsg1-3_all.deb minimal set of modules used by WIMS
wims-moodle_4.0-18_all.deb module for Moodle featuring Wims mini-classes
wims_4.15d~dfsg1-3_i386.deb server for educational content: courses, exercises, and exams
wimtools_1.13.0-1+b1_i386.deb Tools for manipulating Windows Imaging files
win32-loader_0.9.4+deb10u2_all.deb Debian-Installer loader for win32
Advertisement
Advertisement