DOI: 10.18129/B9.bioc.graphite  

This package is for version 3.16 of Bioconductor; for the stable, up-to-date release version, see graphite.

GRAPH Interaction from pathway Topological Environment

Bioconductor version: 3.16

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

Author: Gabriele Sales [cre], Enrica Calura [aut], Chiara Romualdi [aut]

Maintainer: Gabriele Sales <gabriele.sales at>

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


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


biocViews GraphAndNetwork, KEGG, Metabolomics, Network, Pathways, Reactome, Software, ThirdPartyClient
Version 1.44.0
In Bioconductor since BioC 2.9 (R-2.14) (11.5 years)
License AGPL-3
Depends R (>= 4.2), methods
Imports AnnotationDbi, graph(>= 1.67.1), httr, rappdirs, stats, utils, graphics, rlang, purrr
Suggests checkmate, a4Preproc, ALL, BiocStyle, clipper, codetools, hgu133plus2.db, hgu95av2.db, impute, knitr,, parallel, R.rsp, RCy3, rmarkdown, SPIA(>= 2.2), testthat, topologyGSA (>= 1.4.0)
Depends On Me PoTRA
Imports Me dce, EnrichmentBrowser, mogsa, multiGSEA, ReactomePA, sSNAPPY, StarBioTrek
Suggests Me clipper, InterCellar, metaboliteIDmapping
Links To Me
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