Paket: metaphlan2 (2.7.8-1)

[ Quellcode: metaphlan2  ]

Metagenomic Phylogenetic Analysis

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

Andere Pakete mit Bezug zu metaphlan2

• dep: bowtie2

  Ultraschnelles und speichersparendes Alignmentprogramm für kurze DNA-Sequenzen

• dep: metaphlan2-data

  data package for Metagenomic Phylogenetic Analysis

• dep: python

  Interaktive objektorientierte Hochsprache (Python2-Version)

• dep: python-biom-format

  Biological Observation Matrix (BIOM) format (Python 2)

• dep: python-msgpack

  Python-Implementierung des Formats MessagePack

• dep: python-pandas

  data structures for "relational" or "labeled" data

metaphlan2 herunterladen

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