Package: rols 3.1.0

Laurent Gatto

rols: An R interface to the Ontology Lookup Service

The rols package is an interface to the Ontology Lookup Service (OLS) to access and query hundred of ontolgies directly from R.

Authors:Laurent Gatto [aut, cre], Tiage Chedraoui Silva [ctb], Andrew Clugston [ctb]

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rols/json (API)

# Install 'rols' in R:

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

Bug tracker:https://github.com/lgatto/rols/issues

On BioConductor:rols-3.1.0(bioc 3.20)rols-3.0.0(bioc 3.19)

bioconductor-package

43 exports 2.14 score 17 dependencies 3 dependents 1 mentions

Last updated 2 months agofrom:1973f5dfbe

Exports:allRows ancestors as.Term.data.frame as.Terms.data.frame charIsCVParam children cvCharToCVPar CVParam descendants isObsolete isRoot lapply olsConfig olsDesc olsLinks olsLoaded olsNamespace olsPrefix olsRows olsRows<-olsSearch OlsSearch olsStatus olsTitle olsUpdated olsVersion Ontologies Ontology ontologyUrl parents Properties show Term termDesc termId termLabel termLinks termNamespace termOntology termPrefix Terms termSynonym unique

Dependencies:askpass Biobase BiocGenerics cli curl glue httr2 jsonlite lifecycle magrittr openssl R6 rappdirs rlang sys vctrs withr

An R interface to the Ontology Lookup Service

Laurent Gatto

Rendered fromrols.Rmdusingknitr::rmarkdownon Jul 05 2024.

Last update: 2024-02-11
Started: 2016-03-13

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Controlled Vocabulary	as.character.CVParam charIsCVParam cvCharToCVPar CVParam rep,CVParam-method show,CVParam-method
Querying OLS	'olsRows<-' .OlsSearch allRows as.data.frame.OlsSearch olsRows olsRows<- OlsSearch olsSearch show,OlsSearch-method
Ontologies	as.data.frame.Ontologies lapply,Ontologies-method length,Ontologies-method olsConfig olsConfig,Ontology olsConfig,Ontology-method olsDesc olsDesc,character olsDesc,character-method olsDesc,Ontologies olsDesc,Ontologies-method olsDesc,Ontology olsDesc,Ontology-method olsLinks olsLinks,Ontology olsLinks,Ontology-method olsLoaded olsLoaded,character olsLoaded,character-method olsLoaded,Ontologies olsLoaded,Ontologies-method olsLoaded,Ontology olsLoaded,Ontology-method olsNamespace olsNamespace,character olsNamespace,character-method olsNamespace,Ontologies olsNamespace,Ontologies-method olsNamespace,Ontology olsNamespace,Ontology-method olsPrefix olsPrefix,character olsPrefix,character-method olsPrefix,Ontologies olsPrefix,Ontologies-method olsPrefix,Ontology olsPrefix,Ontology-method olsStatus olsStatus,character olsStatus,character-method olsStatus,Ontologies olsStatus,Ontologies-method olsStatus,Ontology olsStatus,Ontology-method olsTitle olsTitle,character olsTitle,character-method olsTitle,Ontologies olsTitle,Ontologies-method olsTitle,Ontology olsTitle,Ontology-method olsUpdated olsUpdated,character olsUpdated,character-method olsUpdated,Ontologies olsUpdated,Ontologies-method olsUpdated,Ontology olsUpdated,Ontology-method olsVersion olsVersion,character olsVersion,character-method olsVersion,Ontologies olsVersion,Ontologies-method olsVersion,Ontology olsVersion,Ontology-method Ontologies Ontologies,missing-method Ontology Ontology,character-method Ontology,Ontology-method ontologyUrl ontologyUrl,character ontologyUrl,character-method ontologyUrl,Ontology ontologyUrl,Ontology-method show,Ontologies-method show,Ontology-method [,Ontologies-method [[,Ontologies-method
Term Properties	length,Properties-method Properties Properties,character Properties,character-method Properties,length Properties,Ontology Properties,Ontology-method Properties,Term Properties,Term-method Properties,Terms Properties,Terms-method Property show,Properties-method show,Property-method
Ontology Terms	ancestors as.Term.data.frame as.Terms.data.frame children descendants isObsolete isObsolete,Term isObsolete,Term-method isObsolete,Terms isObsolete,Terms-method isRoot isRoot,Term isRoot,Term-method isRoot,Terms isRoot,Terms-method lapply,Terms-method length,Terms-method parents show,Term-method show,Terms-method Term Term,character-method Term,Ontology-method termDesc termDesc,Term termDesc,Term-method termDesc,Terms termDesc,Terms-method termId termId,Term termId,Term-method termId,Terms termId,Terms-method termLabel termLabel,Term termLabel,Term-method termLabel,Terms termLabel,Terms-method termLinks termLinks,Term termLinks,Term-method termNamespace termNamespace,Term termNamespace,Term-method termNamespace,Terms termNamespace,Terms-method termOntology termOntology,Term termOntology,Term-method termOntology,Terms termOntology,Terms-method termPrefix termPrefix,Term termPrefix,Term-method termPrefix,Terms termPrefix,Terms-method Terms Terms,character Terms,character-method Terms,Ontology Terms,Ontology-method termSynonym termSynonym,Term termSynonym,Term-method termSynonym,Terms termSynonym,Terms-method unique,Terms-method [,Terms-method [[,Terms-method