PaxtoolsR: pathway analysis in R using Pathway Commons.
Bioinformatics
; 32(8): 1262-4, 2016 04 15.
Article
em En
| MEDLINE
| ID: mdl-26685306
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. AVAILABILITY AND IMPLEMENTATION The PaxtoolsR package is compatible with versions of R 3.1.1 (and higher) on Windows, Mac OS X and Linux using Bioconductor 3.0 and is available through the Bioconductor R package repository along with source code and a tutorial vignette describing common tasks, such as data visualization and gene set enrichment analysis. Source code and documentation are at http//www.bioconductor.org/packages/paxtoolsr This plugin is free, open-source and licensed under the LGPL-3. CONTACT paxtools@cbio.mskcc.org or lunaa@cbio.mskcc.org.
Texto completo:
1
Base de dados:
MEDLINE
Assunto principal:
Software
/
Biologia Computacional
Idioma:
En
Revista:
Bioinformatics
Assunto da revista:
INFORMATICA MEDICA
Ano de publicação:
2016
Tipo de documento:
Article
País de afiliação:
Estados Unidos