PaxtoolsR: Pathway analysis in R using Pathway Commons

Augustin Luna, Ozgun Babur, Bülent Arman Aksoy, Emek Demir, Chris Sander

Research output: Contribution to journalArticle

9 Citations (Scopus)

Abstract

Purpose: PaxtoolsR package enables access to pathway data represented in the BioPAX format and made available through the Pathway Commons webservice for users of the R language to aid in advanced pathway analyses. Features include the extraction, merging and validation of pathway data represented in the BioPAX format. This package also provides novel pathway datasets and advanced querying features for R users through the Pathway Commons webservice allowing users to query, extract and retrieve data and integrate these data with local BioPAX datasets.

Original languageEnglish (US)
Pages (from-to)1262-1264
Number of pages3
JournalBioinformatics
Volume32
Issue number8
DOIs
StatePublished - Apr 15 2016
Externally publishedYes

Fingerprint

Merging
Pathway
Language
Web Services
Datasets
Integrate
Query

ASJC Scopus subject areas

  • Biochemistry
  • Molecular Biology
  • Computational Theory and Mathematics
  • Computer Science Applications
  • Computational Mathematics
  • Statistics and Probability

Cite this

PaxtoolsR : Pathway analysis in R using Pathway Commons. / Luna, Augustin; Babur, Ozgun; Aksoy, Bülent Arman; Demir, Emek; Sander, Chris.

In: Bioinformatics, Vol. 32, No. 8, 15.04.2016, p. 1262-1264.

Research output: Contribution to journalArticle

Luna, Augustin ; Babur, Ozgun ; Aksoy, Bülent Arman ; Demir, Emek ; Sander, Chris. / PaxtoolsR : Pathway analysis in R using Pathway Commons. In: Bioinformatics. 2016 ; Vol. 32, No. 8. pp. 1262-1264.
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