Registration Open for Bioc2024 July 24-26


GRAPH Interaction from pathway Topological Environment

Bioconductor version: Release (3.19)

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")):


To install this package, start R (version "4.4") and enter:

if (!require("BiocManager", quietly = TRUE))


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:

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


biocViews GraphAndNetwork, KEGG, Metabolomics, Network, Pathways, Reactome, Software, ThirdPartyClient
Version 1.50.0
In Bioconductor since BioC 2.9 (R-2.14) (12.5 years)
License AGPL-3
Depends R (>= 4.2), methods
Imports AnnotationDbi, graph(>= 1.67.1), httr, rappdirs, stats, utils, graphics, rlang, purrr
System Requirements
Bug Reports
See More
Suggests checkmate, a4Preproc, ALL, BiocStyle, codetools, hgu133plus2.db, hgu95av2.db, impute, knitr,, parallel, R.rsp, RCy3, rmarkdown, SPIA(>= 2.2), testthat, topologyGSA (>= 1.4.0)
Linking To
Depends On Me
Imports Me CBNplot, dce, EnrichmentBrowser, MIRit, mogsa, multiGSEA, ReactomePA, sSNAPPY, ICDS, netgsa
Suggests Me clipper, InterCellar, metaboliteIDmapping
Links To Me
Build Report Build Report

Package Archives

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

Source Package graphite_1.50.0.tar.gz
Windows Binary (64-bit only)
macOS Binary (x86_64) graphite_1.50.0.tgz
macOS Binary (arm64) graphite_1.50.0.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
Bioc Package Browser
Package Short Url
Package Downloads Report Download Stats