Package: keggorthology 2.65.0

VJ Carey

keggorthology: graph support for KO, KEGG Orthology

graphical representation of the Feb 2010 KEGG Orthology. The KEGG orthology is a set of pathway IDs that are not to be confused with the KEGG ortholog IDs.

Authors:VJ Carey <[email protected]>

keggorthology_2.65.0.tar.gz
keggorthology_2.65.0.zip(r-4.7)keggorthology_2.65.0.zip(r-4.6)keggorthology_2.65.0.zip(r-4.5)
keggorthology_2.65.0.tgz(r-4.6-any)keggorthology_2.65.0.tgz(r-4.5-any)
keggorthology_2.65.0.tar.gz(r-4.7-any)keggorthology_2.65.0.tar.gz(r-4.6-any)
keggorthology_2.65.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION
card.svg |card.png
keggorthology/json (API)

# Install 'keggorthology' in R:

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

Datasets:

keggOrthDF - Create a graph from a specific data frame format for KEGG orthology
KOgraph - Create a graph from a specific data frame format for KEGG orthology

On BioConductor:keggorthology-2.65.0(bioc 3.24)keggorthology-2.64.0(bioc 3.23)

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

pathways graphandnetwork visualization kegg

3.30 score 8 scripts 4 exports 38 dependencies

Last updated from:8c254fee83. Checks:1 ERROR, 7 NOTE, 2 OK. Indexed: yes.

Target	Result	Time
bioc-checks	ERROR	189
linux-devel-x86_64	NOTE	246
source / vignettes	OK	253
linux-release-x86_64	NOTE	273
macos-release-arm64	NOTE	158
macos-oldrel-arm64	NOTE	171
windows-devel	NOTE	182
windows-release	NOTE	179
windows-oldrel	NOTE	182
wasm-release	OK	147

Exports:getKOprobes getKOtags indRender keggDF2graph

Dependencies:AnnotationDbi askpass Biobase BiocGenerics Biostrings bit bit64 blob cachem cli cpp11 crayon curl DBI fastmap generics glue graph hgu95av2.db httr IRanges jsonlite KEGGREST lifecycle memoise mime openssl org.Hs.eg.db pkgconfig png R6 rlang RSQLite S4Vectors Seqinfo sys vctrs XVector

keggorthology overview

Introduction | KOgraph | Application to gene filtering | Infrastructure considerations | Session info

Rendered fromkeggorth.Rnwusingutils::Sweave

Last update: 2013-10-18
Started: 2013-10-18

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
obtain probe set IDs associated with a KO term	getKOprobes getKOtags
indented textual rendering of nodes of a hierarchical graph	indRender
create a graph from a specific data frame format for KEGG orthology	keggDF2graph keggOrthDF KOgraph