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This is the development version of KEGGlincs; for the stable release version, see KEGGlincs.

Visualize all edges within a KEGG pathway and overlay LINCS data

Bioconductor version: Development (3.19)

See what is going on 'under the hood' of KEGG pathways by explicitly re-creating the pathway maps from information obtained from KGML files.

Author: Shana White

Maintainer: Shana White <vandersm at mail.uc.edu>, Mario Medvedovic <medvedm at ucmail.uc.edu>

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


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

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

# The following initializes usage of Bioc devel


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:

KEGGlincs Workflows HTML R Script
Reference Manual PDF


biocViews CellBiology, DataRepresentation, GeneExpression, GraphAndNetwork, KEGG, Network, NetworkInference, Pathways, Software, ThirdPartyClient
Version 1.29.0
In Bioconductor since BioC 3.4 (R-3.3) (7.5 years)
License GPL-3
Depends R (>= 3.3), KOdata, hgu133a.db, org.Hs.eg.db(>= 3.3.0)
Imports AnnotationDbi, KEGGgraph, igraph, plyr, gtools, httr, RJSONIO, KEGGREST, methods, graphics, stats, utils, XML, grDevices
System Requirements Cytoscape (>= 3.3.0), Java (>= 8)
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Suggests BiocManager (>= 1.20.3), knitr, graph
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Follow Installation instructions to use this package in your R session.

Source Package KEGGlincs_1.29.0.tar.gz
Windows Binary KEGGlincs_1.29.0.zip
macOS Binary (x86_64) KEGGlincs_1.29.0.tgz
macOS Binary (arm64) KEGGlincs_1.29.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/KEGGlincs
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/KEGGlincs
Bioc Package Browser https://code.bioconductor.org/browse/KEGGlincs/
Package Short Url https://bioconductor.org/packages/KEGGlincs/
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