graphite

This package is for version 3.10 of Bioconductor; for the stable, up-to-date release version, see graphite.

GRAPH Interaction from pathway Topological Environment

Bioconductor version: 3.10

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")):

To install this package, start R (version "3.6") and enter:


if (!require("BiocManager", quietly = TRUE))
 install.packages("BiocManager")
BiocManager::install("graphite")

For older versions of R, please refer to the appropriate Bioconductor release.

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

browseVignettes("graphite")

GRAPH Interaction from pathway Topological Environment PDF R Script

metabolites.pdf PDF

Reference Manual PDF

NEWS Text

Version 1.32.0

In Bioconductor since BioC 2.9 (R-2.14) (12.5 years)

License AGPL-3

Depends R (>= 2.10), methods

Imports AnnotationDbi, checkmate, graph, httr, rappdirs, stats, utils

System Requirements

URL

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)

Linking To

Enhances

Depends On Me PoTRA, ToPASeq

Suggests Me clipper, signet

Links To Me

Build Report Build Report

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

Source Package graphite_1.32.0.tar.gz

Windows Binary graphite_1.32.0.zip (32- & 64-bit)

Mac OS X 10.11 (El Capitan) graphite_1.32.0.tgz

Source Repository git clone https://git.bioconductor.org/packages/graphite

Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/graphite

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Old Source Packages for BioC 3.10 Source Archive