graphite

DOI: 10.18129/B9.bioc.graphite    

GRAPH Interaction from pathway Topological Environment

Bioconductor version: Release (3.8)

Graph objects from pathway topology derived from Biocarta, HumanCyc, KEGG, NCI, Panther, PathBank, PharmGKB, Reactome and SMPDB databases.

Author: Gabriele Sales <gabriele.sales at unipd.it>, Enrica Calura <enrica.calura at gmail.com>, Chiara Romualdi <chiara.romualdi at unipd.it>

Maintainer: Gabriele Sales <gabriele.sales at unipd.it>

Citation (from within R, enter citation("graphite")):

Installation

To install this package, start R and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")
BiocManager::install("graphite", version = "3.8")

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("graphite")

 

PDF R Script GRAPH Interaction from pathway Topological Environment
PDF metabolites.pdf
PDF   Reference Manual
Text   NEWS

Details

biocViews BioCarta, GraphAndNetwork, KEGG, Metabolomics, Network, Pathways, Reactome, Software, ThirdPartyClient
Version 1.28.0
In Bioconductor since BioC 2.9 (R-2.14) (7 years)
License AGPL-3
Depends R (>= 2.10), methods
Imports AnnotationDbi, checkmate, graph, httr, rappdirs, stats, utils
LinkingTo
Suggests a4Preproc, ALL, BiocStyle, clipper, codetools, hgu133plus2.db, hgu95av2.db, impute, knitr, org.Hs.eg.db, parallel, R.rsp, RCy3, rmarkdown, SPIA(>= 2.2), testthat, topologyGSA (>= 1.4.0)
SystemRequirements
Enhances
URL
Depends On Me ToPASeq
Imports Me EnrichmentBrowser, mogsa, ReactomePA
Suggests Me clipper, signet
Links To Me
Build Report  

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package graphite_1.28.0.tar.gz
Windows Binary
Mac OS X 10.11 (El Capitan) graphite_1.28.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/graphite
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/graphite
Package Short Url http://bioconductor.org/packages/graphite/
Package Downloads Report Download Stats

Documentation »

Bioconductor

R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations: