graphite
This package is for version 3.12 of Bioconductor; for the stable, up-to-date release version, see graphite.
GRAPH Interaction from pathway Topological Environment
Bioconductor version: 3.12
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("graphite")):
Installation
To install this package, start R (version "4.0") 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.
Documentation
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 | R Script | |
| metabolites.pdf | ||
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | BioCarta, GraphAndNetwork, KEGG, Metabolomics, Network, Pathways, Reactome, Software, ThirdPartyClient |
| Version | 1.36.0 |
| In Bioconductor since | BioC 2.9 (R-2.14) (12.5 years) |
| License | AGPL-3 |
| Depends | R (>= 2.10), methods |
| Imports | AnnotationDbi, checkmate, graph(>= 1.67.1), httr, rappdirs, stats, utils |
| System Requirements | |
| URL |
See More
| 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 |
| Imports Me | EnrichmentBrowser, mogsa, multiGSEA, ReactomePA, StarBioTrek |
| Suggests Me | clipper, metaboliteIDmapping, signet |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | graphite_1.36.0.tar.gz |
| Windows Binary | graphite_1.36.0.zip |
| macOS 10.13 (High Sierra) | graphite_1.36.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/graphite |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/graphite |
| Bioc Package Browser | https://code.bioconductor.org/browse/graphite/ |
| Package Short Url | https://bioconductor.org/packages/graphite/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.12 | Source Archive |