Árbore:
331a473f1a
11.0
12.0
12.1
12.2
13.0
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14.0
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bedlam
bedlam-name-fixes
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user/anddt/system/FontAwesome
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Serban Udrea
b775f3e2b9
academic/MetaPhlAn2: Fix ARCH and deps.
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| MetaPhlAn2.SlackBuild | b775f3e2b9 academic/MetaPhlAn2: Fix ARCH and deps. | %!s(int64=2) %!d(string=hai) anos |
| MetaPhlAn2.info | b775f3e2b9 academic/MetaPhlAn2: Fix ARCH and deps. | %!s(int64=2) %!d(string=hai) anos |
| README | 0119bf12c5 academic/MetaPhlAn2: Fix README. | %!s(int64=4) %!d(string=hai) anos |
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| slack-desc | 3a6cdee564 academic/MetaPhlAn2: Added (Metagenomic Phylogenetic Analysis). | %!s(int64=5) %!d(string=hai) anos |
README
MetaPhlAn2 is a computational tool for profiling the composition of
microbial communities (Bacteria, Archaea and Eukaryotes) from meta-
genomic shotgun sequencing data (i.e. not 16S) with species-level.
With the newly added StrainPhlAn module, it is now possible to perform
accurate strain-level microbial profiling. MetaPhlAn2 relies on ~1.5M
unique clade-specific marker genes. The latest marker information file
`mpa_v29_CHOCOPhlAn_201901_marker_info.txt.bz2` can be found in the
Download page (https://bitbucket.org/biobakery/metaphlan2/downloads/)
identified from ~100,000 reference genomes (~99,500 bacterial and
archaeal and ~500 eukaryotic), allowing:
* unambiguous taxonomic assignments;
* accurate estimation of organismal relative abundance;
* species-level resolution for bacteria, archaea, eukaryotes, viruses;
* strain identification and tracking
* orders of magnitude speedups compared to existing methods.
* metagenomic strain-level population genomics
If you use MetaPhlAn2, please cite:
MetaPhlAn2 for enhanced metagenomic taxonomic profiling. Duy Tin Truong,
Eric A Franzosa, Timothy L Tickle, Matthias Scholz, George Weingart,
Edoardo Pasolli, Adrian Tett, Curtis Huttenhower & Nicola Segata. Nature
Methods 12, 902-903 (2015)
If you use StrainPhlAn, please cite the MetaPhlAn2 paper and the
following StrainPhlAn paper:
Microbial strain-level population structure and genetic diversity from
metagenomes. Duy Tin Truong, Adrian Tett, Edoardo Pasolli, Curtis
Huttenhower, & Nicola Segata. Genome Research 27:626-638 (2017)
NOTE!
The script places the python files in /usr/share/MetaPhlAn2 and creates
symlinks to /usr/bin. If you are using metaphlan2.py with Ugene, it may
not work with the symlink. Instead, just point Ugene directly to
/usr/share/MetaPhlAn2/metaphlan2.py
microbial communities (Bacteria, Archaea and Eukaryotes) from meta-
genomic shotgun sequencing data (i.e. not 16S) with species-level.
With the newly added StrainPhlAn module, it is now possible to perform
accurate strain-level microbial profiling. MetaPhlAn2 relies on ~1.5M
unique clade-specific marker genes. The latest marker information file
`mpa_v29_CHOCOPhlAn_201901_marker_info.txt.bz2` can be found in the
Download page (https://bitbucket.org/biobakery/metaphlan2/downloads/)
identified from ~100,000 reference genomes (~99,500 bacterial and
archaeal and ~500 eukaryotic), allowing:
* unambiguous taxonomic assignments;
* accurate estimation of organismal relative abundance;
* species-level resolution for bacteria, archaea, eukaryotes, viruses;
* strain identification and tracking
* orders of magnitude speedups compared to existing methods.
* metagenomic strain-level population genomics
If you use MetaPhlAn2, please cite:
MetaPhlAn2 for enhanced metagenomic taxonomic profiling. Duy Tin Truong,
Eric A Franzosa, Timothy L Tickle, Matthias Scholz, George Weingart,
Edoardo Pasolli, Adrian Tett, Curtis Huttenhower & Nicola Segata. Nature
Methods 12, 902-903 (2015)
If you use StrainPhlAn, please cite the MetaPhlAn2 paper and the
following StrainPhlAn paper:
Microbial strain-level population structure and genetic diversity from
metagenomes. Duy Tin Truong, Adrian Tett, Edoardo Pasolli, Curtis
Huttenhower, & Nicola Segata. Genome Research 27:626-638 (2017)
NOTE!
The script places the python files in /usr/share/MetaPhlAn2 and creates
symlinks to /usr/bin. If you are using metaphlan2.py with Ugene, it may
not work with the symlink. Instead, just point Ugene directly to
/usr/share/MetaPhlAn2/metaphlan2.py