Dataset Open Access

Functional Association of Prokaryotic Virus Orthologous Groups: A Proof of Concept - Data

Pappas, Nikolaos; Dutilh, E. Bas


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<oai_dc:dc xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:oai_dc="http://www.openarchives.org/OAI/2.0/oai_dc/" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://www.openarchives.org/OAI/2.0/oai_dc/ http://www.openarchives.org/OAI/2.0/oai_dc.xsd">
  <dc:creator>Pappas, Nikolaos</dc:creator>
  <dc:creator>Dutilh, E. Bas</dc:creator>
  <dc:date>2021-03-03</dc:date>
  <dc:description>Raw data required to reproduce all intermediate results and thereby the final predictions.

These are used in the accompanying snakemake pipeline https://git.science.uu.nl/papanikos/pvogs_function.

This archive is automatically downloaded and files are extracted when executing the pipeline.

You can also download and extract the files manually.

Included files are:


	data/genomes/phages_refseq.fasta : A multifasta file with all phage genomes available on RefSeq , on 14/01/2020
	data/interactions/interactions.txt: A PSI-MI TAB file containing all interactions from IntAct, retrieved on 28/05/2019
	data/pvogs/all.hmm : All hmmer profiles for pVOGs, retrieved from http://dmk-brain.ecn.uiowa.edu/pVOGs/downloads on 13/01/2020
	data/pvogs/VOGProteinTable.txt: pVOGs occurrence on genomes used in the pVOGs paper, along with their annotation, retrieved on 16/01/2020
	data/taxonomy_db/taxa.sqlite.db: Taxonomy db created with ete3 toolkit with data retrieved on 16/05/2019
	data/taxonomy_db/taxa.traverse.pkl: Created automatically with ete3.
	data/md5sums.txt: md5sums for all files
</dc:description>
  <dc:identifier>https://zenodo.org/record/4576599</dc:identifier>
  <dc:identifier>10.5281/zenodo.4576599</dc:identifier>
  <dc:identifier>oai:zenodo.org:4576599</dc:identifier>
  <dc:language>eng</dc:language>
  <dc:relation>doi:10.5281/zenodo.4576598</dc:relation>
  <dc:rights>info:eu-repo/semantics/openAccess</dc:rights>
  <dc:rights>https://creativecommons.org/licenses/by/4.0/legalcode</dc:rights>
  <dc:title>Functional Association of Prokaryotic Virus Orthologous Groups: A Proof of Concept - Data</dc:title>
  <dc:type>info:eu-repo/semantics/other</dc:type>
  <dc:type>dataset</dc:type>
</oai_dc:dc>
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