metaphlan2_2.7.8-1_all.deb


Advertisement

Description

metaphlan2 - Metagenomic Phylogenetic Analysis

Property Value
Distribution Ubuntu 19.04 (Disco Dingo)
Repository Ubuntu Universe amd64
Package filename metaphlan2_2.7.8-1_all.deb
Package name metaphlan2
Package version 2.7.8
Package release 1
Package architecture all
Package type deb
Category universe/science
Homepage https://bitbucket.org/biobakery/metaphlan2
License -
Maintainer Ubuntu Developers <ubuntu-devel-discuss@lists.ubuntu.com>
Download size 571.62 KB
Installed size 1.13 MB
MetaPhlAn is a computational tool for profiling the composition of
microbial communities (Bacteria, Archaea, Eukaryotes and Viruses) from
metagenomic shotgun sequencing data with species level resolution. From
version 2.0, MetaPhlAn is also able to identify specific strains (in the
not-so-frequent cases in which the sample contains a previously
sequenced strains) and to track strains across samples for all species.
MetaPhlAn 2.0 relies on ~1M unique clade-specific marker genes (the
marker information file can be found at
usr/share/metaphlan2/utils/markers_info.txt.bz2) identified from
~17,000 reference genomes (~13,500 bacterial and archaeal, ~3,500 viral,
and ~110 eukaryotic), allowing:
* unambiguous taxonomic assignments;
* accurate estimation of organismal relative abundance;
* species-level resolution for bacteria, archaea, eukaryotes and
viruses;
* strain identification and tracking
* orders of magnitude speedups compared to existing methods.
* metagenomic strain-level population genomics

Alternatives

Package Version Architecture Repository
metaphlan2_2.7.8-1_all.deb 2.7.8 all Ubuntu Universe
metaphlan2 - - -

Requires

Name Value
bowtie2 -
metaphlan2-data -
python-biom-format -
python-msgpack -
python-pandas -
python:any -

Download

Type URL
Mirror archive.ubuntu.com
Binary Package metaphlan2_2.7.8-1_all.deb
Source Package metaphlan2

Install Howto

  1. Update the package index:
    # sudo apt-get update
  2. Install metaphlan2 deb package:
    # sudo apt-get install metaphlan2

Files

Path
/usr/bin/metaphlan2
/usr/bin/strainphlan
/usr/share/doc/metaphlan2/README.html
/usr/share/doc/metaphlan2/changelog.Debian.gz
/usr/share/doc/metaphlan2/copyright
/usr/share/doc/metaphlan2/images/1574126761-RAxML_bestTree.s__Bacteroides_caccae.tree.metadata.png
/usr/share/doc/metaphlan2/images/1771497600-snp_distance.png
/usr/share/doc/metaphlan2/images/476974413-tree_alignment.png
/usr/share/doc/metaphlan2/images/get-pngs
/usr/share/man/man1/metaphlan2.1.gz
/usr/share/man/man1/strainphlan.1.gz
/usr/share/metaphlan2/__init__.py
/usr/share/metaphlan2/_metaphlan2.py
/usr/share/metaphlan2/metaphlan2.py
/usr/share/metaphlan2/plugin_setup.py
/usr/share/metaphlan2/strainphlan.py
/usr/share/metaphlan2/utils/extract_markers.py
/usr/share/metaphlan2/utils/merge_metaphlan_tables.py
/usr/share/metaphlan2/utils/metaphlan2krona.py
/usr/share/metaphlan2/utils/metaphlan_hclust_heatmap.py
/usr/share/metaphlan2/utils/plot_bug.py
/usr/share/metaphlan2/utils/read_fastx.py
/usr/share/metaphlan2/utils/species2genomes.txt
/usr/share/python/runtime.d/metaphlan2.rtupdate

Changelog

2018-09-17 - Andreas Tille <tille@debian.org>
metaphlan2 (2.7.8-1) unstable; urgency=medium
* Drop libjs-twitter-bootstrap dependency which is not needed any more
Closes: #908426
* New upstream version
* Standards-Version: 4.2.1
* d/watch: Uversionmangle to avoid missinterpretation of nano version
number that is not separated by '.'
2018-05-28 - Andreas Tille <tille@debian.org>
metaphlan2 (2.7.6-1) unstable; urgency=medium
[ Andreas Tille ]
* New upstream version
* Point Vcs fields to salsa.debian.org
* Standards-Version: 4.1.4
* Avoid privacy breach by referencing remote files from README.html
[ Tony Travis ]
* Compile with Python2 despite _metaphlan2.py is using Python3 syntax
2018-02-16 - Andreas Tille <tille@debian.org>
metaphlan2 (2.7.5-1) unstable; urgency=medium
* New upstream version (no data shiped with this archive any more)
* Standards-Version: 4.1.3
* debhelper 11
* db_v20/mpa_v20_m200.pkl was removed from upstream source so we can not
install this file
2016-12-11 - Andreas Tille <tille@debian.org>
metaphlan2 (2.6.0+ds-2) unstable; urgency=medium
* Fix location of marker information file
Closes: #847670
* debhelper 10
* d/watch: version=4
2016-09-17 - Andreas Tille <tille@debian.org>
metaphlan2 (2.6.0+ds-1) unstable; urgency=medium
* Initial release (Closes: #838083)
2016-05-23 - Andreas Tille <tille@debian.org>
metaphlan2 (2.5.0-0~ubuntu14.04~ppa1) trusty; urgency=medium
* Pre-release to Debian Med PPA

See Also

Package Description
metapixel_1.0.2-7.4build1_amd64.deb generator for photomosaics
metar_20061030.1-2.2_amd64.deb utility to download/decode METAR reports
metastore_1.1.2-2_amd64.deb Store and restore metadata from a filesystem
metastudent-data-2_1.0.0-4_all.deb predictor of Gene Ontology terms from protein sequence - data #2
metastudent-data_2.0.1-4_all.deb predictor of Gene Ontology terms from protein sequence - data files
metastudent_2.0.1-6_all.deb predictor of Gene Ontology terms from protein sequence
metche_1.2.4-1_all.deb configuration monitor to ease collective administration
meteo-qt-l10n_1.0.0-1_all.deb Application to display weather information (translations)
meteo-qt_1.0.0-1_amd64.deb Application to display weather information
meterbridge_0.9.2-13_amd64.deb Collection of Audio meters for the JACK audio server
meterec_0.9.2~ds0-2build2_amd64.deb minimalistic multi track recorder
metis_5.1.0.dfsg-5_amd64.deb Serial Graph Partitioning and Fill-reducing Matrix Ordering. Binaries
metview-data_5.3.0-1_all.deb Data needed for the Metview data analysis environment
metview_5.3.0-1_amd64.deb Interactive data visualization and analysis environment,
mew-beta-bin_7.0.50~6.8+0.20180710-3_amd64.deb external commands for Mew (development version)
Advertisement
Advertisement