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Open-Source — ultimaker (Ultimaker) / debian-backup — Project

A certifiably-awesome open-source package repository curated by Ultimaker, hosted by Cloudsmith.

Note: Packages in this repository are licensed as GNU General Public License v3.0 or later (dependencies may be licensed differently).

metaphlan2-data 2.6.0+ds-4

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One-liner (summary)

data package for Metagenomic Phylogenetic Analysis

Description

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 src/utils/markers_info.txt.bz2 or here) 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

This package contains the data for metaphlan2.

License

Unknown

Size

194.9 MB

Downloads

Status	Completed
Checksum (MD5)	de685246213a02dcedfee6e464f7ac11
Checksum (SHA-1)	5f36996a7c2040dffdfe5e6a8af2ca768278851f
Checksum (SHA-256)	f38a6e3f49d7b03ba80d9fdd5647b9f9f2dfb38d43b28618053e8ef2c60db7d7
Checksum (SHA-512)	1ff68a039121a7d746f4d345a9b7d270a34fe7b5748160129ff58b26c8e5f164ac…
GPG Signature	Download
GPG Fingerprint	c0a114330029b468b1146f70c334efcb2c4f9be3
Distribution	debian/buster - Debian - 10 (Buster)
Storage Region	Dublin, Ireland
Type	Binary (contains binaries and binary artifacts)
Uploaded At	9 months, 1 week ago
Uploaded By
Slug Id	metaphlan2-data_260ds-4_alldeb-jbaf
Unique Id	iPCRaFmrn6Cv
Version (Raw)	2.6.0+ds-4
Version (Parsed)	Major: 2 Minor: 6 Patch: 0 Type: SemVer (Strict) Metadata: ds-4
	extended metadata
Homepage	https://bitbucket.org/biobakery/metaphlan2
Installed Size	735.5 MB
Maintainer	Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Priority	optional
Section	science

Dependencies

Checksum (md5)

c955ce69ad0d789dec8d19e1824dee2d

Depends	bowtie2
Depends	debconf	>=0.5
Depends	debconf-2.0

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[![This version of 'metaphlan2-data' @ Cloudsmith](https://api.cloudsmith.com/v1/badges/version/ultimaker/debian-backup/deb/metaphlan2-data/2.6.0+ds-4/a=all;xc=main;d=debian%252Fbuster;t=binary/?render=true)](https://cloudsmith.io/~ultimaker/repos/debian-backup/packages/detail/deb/metaphlan2-data/2.6.0+ds-4/a=all;xc=main;d=debian%252Fbuster;t=binary/)

|This version of 'metaphlan2-data' @ Cloudsmith|
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image::https://api.cloudsmith.com/v1/badges/version/ultimaker/debian-backup/deb/metaphlan2-data/2.6.0+ds-4/a=all;xc=main;d=debian%252Fbuster;t=binary/?render=true[link="https://cloudsmith.io/~ultimaker/repos/debian-backup/packages/detail/deb/metaphlan2-data/2.6.0+ds-4/a=all;xc=main;d=debian%252Fbuster;t=binary/",title="This version of 'metaphlan2-data' @ Cloudsmith"]

<a href="https://cloudsmith.io/~ultimaker/repos/debian-backup/packages/detail/deb/metaphlan2-data/2.6.0+ds-4/a=all;xc=main;d=debian%252Fbuster;t=binary/"><img src="https://api.cloudsmith.com/v1/badges/version/ultimaker/debian-backup/deb/metaphlan2-data/2.6.0+ds-4/a=all;xc=main;d=debian%252Fbuster;t=binary/?render=true" alt="This version of 'metaphlan2-data' @ Cloudsmith" /></a>

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|Latest version of 'metaphlan2-data' @ Cloudsmith|
.. |Latest version of 'metaphlan2-data' @ Cloudsmith| image:: https://api.cloudsmith.com/v1/badges/version/ultimaker/debian-backup/deb/metaphlan2-data/latest/a=all;xc=main;d=debian%252Fbuster;t=binary/?render=true&show_latest=true
   :target: https://cloudsmith.io/~ultimaker/repos/debian-backup/packages/detail/deb/metaphlan2-data/latest/a=all;xc=main;d=debian%252Fbuster;t=binary/

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<a href="https://cloudsmith.io/~ultimaker/repos/debian-backup/packages/detail/deb/metaphlan2-data/latest/a=all;xc=main;d=debian%252Fbuster;t=binary/"><img src="https://api.cloudsmith.com/v1/badges/version/ultimaker/debian-backup/deb/metaphlan2-data/latest/a=all;xc=main;d=debian%252Fbuster;t=binary/?render=true&show_latest=true" alt="Latest version of 'metaphlan2-data' @ Cloudsmith" /></a>

rendered as:

These instructions assume you have setup the repository first (or read it).

To install/use metaphlan2-data @ version 2.6.0+ds-4 ...

To install packages, you can quickly setup the repository automatically (recommended):

curl -1sLf \
  'https://dl.cloudsmith.io/public/ultimaker/debian-backup/setup.deb.sh' \
  | sudo -E bash

If you need to force a specific distribution, release/version, architecture, or component (if supported), you can also do that (e.g. if your system is compatible but not identical):

curl -1sLf \
  'https://dl.cloudsmith.io/public/ultimaker/debian-backup/setup.deb.sh' \
  | sudo -E distro=debian codename=buster arch=ARCH component=COMPONENT bash

or ... you can manually configure it yourself before installing packages:

apt-get install -y debian-keyring  # debian only
apt-get install -y debian-archive-keyring  # debian only
apt-get install -y apt-transport-https
# For Debian Stretch, Ubuntu 16.04 and later
keyring_location=/usr/share/keyrings/ultimaker-debian-backup-archive-keyring.gpg
# For Debian Jessie, Ubuntu 15.10 and earlier
keyring_location=/etc/apt/trusted.gpg.d/ultimaker-debian-backup.gpg
curl -1sLf 'https://dl.cloudsmith.io/public/ultimaker/debian-backup/gpg.C334EFCB2C4F9BE3.key' |  gpg --dearmor >> ${keyring_location}
curl -1sLf 'https://dl.cloudsmith.io/public/ultimaker/debian-backup/config.deb.txt?distro=debian&codename=buster&component=main' > /etc/apt/sources.list.d/ultimaker-debian-backup.list
sudo chmod 644 ${keyring_location}
sudo chmod 644 /etc/apt/sources.list.d/ultimaker-debian-backup.list
apt-get update

sudo apt-get install metaphlan2-data=2.6.0+ds-4

Warning: Note that this package is for Debian 10 (Buster) / all and may only work for that configuration.

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