graphite
GRAPH Interaction from pathway Topological Environment
Bioconductor version: 3.24 · Package version: 1.59.0
Graph objects from pathway topology derived from KEGG, Panther, PathBank, PharmGKB, Reactome SMPDB and WikiPathways databases.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("graphite")Details
| Maintainer | Gabriele Sales <gabriele.sales@unipd.it> |
| Author | Gabriele Sales [cre] (ORCID: <https://orcid.org/0000-0003-2078-5661>), Enrica Calura [aut], Chiara Romualdi [aut] |
| License | AGPL-3 |
| URL | https://github.com/sales-lab/graphite |
| Bug Reports | https://github.com/sales-lab/graphite/issues |
| Downloads rank | 6395 |
| Source branch | devel |
| biocViews | GraphAndNetwork, KEGG, Metabolomics, Network, Pathways, Reactome, Software, ThirdPartyClient |
Download
Follow the installation instructions to use this package in your R session.
| Source package | graphite_1.59.0.tar.gz |
| Windows binary (x86_64) | graphite_1.59.0.zip |
| macOS binary (arm64) | graphite_1.59.0.tgz |
| macOS binary (x86_64) | graphite_1.59.0.tgz |
Dependencies
Depends: R (>= 4.2), methods
Imports: AnnotationDbi, graph (>= 1.67.1), httr, rappdirs, stats, utils, graphics, rlang, lifecycle, purrr, dir.expiry
Suggests: checkmate, 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)
Reverse dependencies
Imports Me (10): CBNplot, EnrichmentBrowser, MIRit, mogsa, MOSClip, multiGSEA, netgsa, ReactomePA, SEMgraph, sSNAPPY
Suggests Me (3): clipper, InterCellar, metaboliteIDmapping