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ZENODO
Dataset . 2017
License: CC BY SA
Data sources: Datacite
image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/
ZENODO
Dataset . 2017
License: CC BY SA
Data sources: Datacite
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Data For Yamp (Https://Github.Com/Alesssia/Yamp)

Research datakeyboard_double_arrow_right Dataset 28 Nov 2017Publisher:Zenodo
Authors: , Alessia;

doi: 10.5281/zenodo.1068229 , 10.5281/zenodo.1068228

Data For Yamp (Https://Github.Com/Alesssia/Yamp)

Abstract

This dataset includes all the databases/datasets queried by YAMP (https://github.com/alesssia/YAMP). This dataset has been created to help the users to get started with YAMP, and to save them from the hassle of collecting and downloading the data from different sources. More in details, this dataset contains: a FASTA file listing the adapter sequences to remove in the trimming step. This file is usually provided within the BBmap installation (https://sourceforge.net/projects/bbmap, version 37.68). two FASTA files describing synthetic contaminants (sequencing_artifacts.fa.gz and phix174_ill.ref.fa.gz). These files are usually provided within the BBmap installation (https://sourceforge.net/projects/bbmap, version 37.68). a FASTA file provided by Brian Bushnell for removing human contamination (described here: http://seqanswers.com/forums/showthread.php?t=42552). Please note that this file should be indexed beforehand. This can be done using BBMap, using the following command: `bbmap.sh -Xmx24G ref=hg19_main_mask_ribo_animal_allplant_allfungus.fa.gz`. the BowTie2 database file for MetaPhlAn2. This file is usually provided within the MetaPhlAn2 installation (version 2.6.0) the ChocoPhlAn and UniRef (Uniref50, Uniref90) databases, downloaded directly by HUMAnN2 (version 0.9.9), as explained here: https://bitbucket.org/biobakery/humann2/wiki/Home#markdown-header-5-download-the-databases

Keywords

metagenomics, workflow,

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selected citations
These citations are derived from selected sources.
This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Citations provided by BIP!
popularity
This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.
BIP!Popularity provided by BIP!
influence
This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Influence provided by BIP!
impulse
This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.
BIP!Impulse provided by BIP!
views
OpenAIRE UsageCountsViews provided by UsageCounts
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