Paket: metaphlan2 (2.7.8-1)

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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

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erweitert

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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