KEGGREST: Client-side REST access to the Kyoto Encyclopedia of Genes and Genomes (KEGG)

Package: KEGGREST 1.53.4

Bioconductor Package Maintainer

KEGGREST: Client-side REST access to the Kyoto Encyclopedia of Genes and Genomes (KEGG)

A package that provides a client interface to the Kyoto Encyclopedia of Genes and Genomes (KEGG) REST API. Only for academic use by academic users belonging to academic institutions (see <https://www.kegg.jp/kegg/rest/>). Note that KEGGREST is based on KEGGSOAP by J. Zhang, R. Gentleman, and Marc Carlson, and KEGG (python package) by Aurelien Mazurie.

Authors:Dan Tenenbaum [aut], Bioconductor Package Maintainer [aut, cre], Martin Morgan [ctb], Kozo Nishida [ctb], Marcel Ramos [ctb], Kristina Riemer [ctb], Lori Shepherd [ctb], Jeremy Volkening [ctb]

KEGGREST_1.53.4.tar.gz
KEGGREST_1.53.4.zip(r-4.7)KEGGREST_1.53.4.zip(r-4.6)KEGGREST_1.53.4.zip(r-4.5)
KEGGREST_1.53.4.tgz(r-4.6-any)KEGGREST_1.53.4.tgz(r-4.5-any)
KEGGREST_1.53.4.tar.gz(r-4.7-any)KEGGREST_1.53.4.tar.gz(r-4.6-any)
KEGGREST_1.53.4.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
KEGGREST/json (API)

# Install 'KEGGREST' in R:

install.packages('KEGGREST', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/bioconductor/keggrest/issues

On BioConductor:KEGGREST-1.53.0(bioc 3.24)KEGGREST-1.52.0(bioc 3.23)

annotation pathways thirdpartyclient kegg bioconductor-package core-package

13.39 score 15 stars 777 packages 1.6k scripts 75 mentions 9 exports 17 dependencies

Last updated from:f0ab716e73. Checks:1 FAILURE, 4 ERROR, 5 OK. Indexed: yes.

Target	Result	Time
bioc-checks	FAILURE	215
linux-devel-x86_64	ERROR	269
source / vignettes	OK	360
linux-release-x86_64	OK	324
macos-release-arm64	OK	235
macos-oldrel-arm64	OK	205
windows-devel	ERROR	174
windows-release	ERROR	177
windows-oldrel	ERROR	189
wasm-release	OK	115

Exports:color.pathway.by.objects keggCompounds keggConv keggFind keggGet keggInfo keggLink keggList listDatabases

Dependencies:askpass BiocGenerics Biostrings crayon curl generics httr IRanges jsonlite mime openssl png R6 S4Vectors Seqinfo sys XVector

Accessing the KEGG REST API

Rendered fromKEGGREST-vignette.Rmdusingknitr::rmarkdown

Help page	Topics
Client-side interface to obtain an url for a KEGG pathway diagram with a given set of genes marked	color.pathway.by.objects
Get list of compounds IDs for pathway	keggCompounds
Convert KEGG identifiers to/from outside identifiers	bconv conv keggConv
Finds entries with matching query keywords or other query data in a given database	keggFind
Retrieves given database entries	keggGet
Displays the current statistics of a given database	info keggInfo
Find related entries by using database cross-references.	keggLink link
Returns a list of entry identifiers and associated definition for a given database or a given set of database entries.	keggList
Lists the KEGG databases which may be searched.	listDatabases

Help page

Topics

Client-side interface to obtain an url for a KEGG pathway diagram with a given set of genes marked

color.pathway.by.objects

Get list of compounds IDs for pathway

keggCompounds

Convert KEGG identifiers to/from outside identifiers

bconv conv keggConv

Finds entries with matching query keywords or other query data in a given database

keggFind

Retrieves given database entries

keggGet