Package: meshr 2.19.0

Koki Tsuyuzaki

meshr: Tools for conducting enrichment analysis of MeSH

A set of annotation maps describing the entire MeSH assembled using data from MeSH.

Authors:Koki Tsuyuzaki, Itoshi Nikaido, Gota Morota

meshr_2.19.0.tar.gz
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meshr_2.19.0.tgz(r-4.6-any)meshr_2.19.0.tgz(r-4.5-any)
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manual.pdf |manual.html✨
card.svg |card.png
meshr/json (API)
NEWS

# Install 'meshr' in R:
install.packages('meshr', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/rikenbit/meshr/issues

On BioConductor:meshr-2.19.0(bioc 3.24)meshr-2.18.0(bioc 3.23)

annotationdatafunctionalannotationbioinformaticsstatisticsannotationmultiplecomparisonsmeshdb

4.73 score 1 stars 1 packages 15 scripts 476 downloads 6 mentions 22 exports 73 dependencies

Last updated from:530ff4e609. Checks:1 ERROR, 7 NOTE, 2 OK. Indexed: yes.

TargetResultTimeFilesSyslog
bioc-checksERROR204
linux-devel-x86_64NOTE313
source / vignettesOK231
linux-release-x86_64NOTE257
macos-release-arm64NOTE172
macos-oldrel-arm64NOTE134
windows-develNOTE188
windows-releaseNOTE223
windows-oldrelNOTE196
wasm-releaseOK139

Exports:annotationannotation<-categorycategory<-databasedatabase<-geneIdsinitializemakeValidParamsmeshAnnotationmeshCategorymeshDatabasemeshHyperGTestmeshIdspAdjustpAdjust<-pvalueCutoffpvalueCutoff<-showsummaryuniverseGeneIdsuniverseGeneIds<-

Dependencies:annotateAnnotationDbiaskpassbase64encBHBiobaseBiocGenericsBiocManagerBiocStyleBiostringsbitbit64blobbookdownbslibcachemCategoryclicommonmarkcpp11crayoncurlDBIdigestevaluatefastmapfdrtoolfontawesomefsgenefiltergenericsgluegraphGSEABasehighrhtmltoolshttrIRangesjquerylibjsonliteKEGGRESTknitrlatticelifecyclelitedownmarkdownMatrixMatrixGenericsmatrixStatsmemoiseMeSHDbimimeopensslpkgconfigpngR6rappdirsRBGLrlangrmarkdownRSQLiteS4VectorssassSeqinfosurvivalsystinytexvctrsxfunXMLxtableXVectoryaml

AnnotationHub-style MeSH ORA Framework from BioC 3.14

Koki Tsuyuzaki, Gota Morota, Manabu Ishii, Takeru Nakazato, Itoshi Nikaido

Rendered fromMeSH.Rmdusingknitr::rmarkdownon May 30 2026.

Last update: 2021-10-18
Started: 2021-08-20

Readme and manuals

Help Manual

Help pageTopics
Enrichment analysis for MeSH terms.meshr-package meshr
A function to return the name of MeSH categorycategory category,MeSHHyperGParams-method category<- category<-,MeSHHyperGParams,character-method generic,category
A function to return the name of MeSH databasedatabase database,MeSHHyperGParams-method database<- database<-,MeSHHyperGParams,character-method generic,database
Class "MeSHHyperGParams"annotation,MeSHHyperGParams-method annotation<-,MeSHHyperGParams,character-method geneIds,MeSHHyperGParams-method geneIds<-,MeSHHyperGParams,ANY-method geneIds<-,MeSHHyperGParams,logical-method initialize,MeSHHyperGParams-method makeValidParams,MeSHHyperGParams-method MeSHHyperGParams-class pAdjust pAdjust,MeSHHyperGParams-method pAdjust<- pAdjust<-,MeSHHyperGParams,character-method pvalueCutoff,MeSHHyperGParams-method pvalueCutoff<-,MeSHHyperGParams-method universeGeneIds universeGeneIds,MeSHHyperGParams-method universeGeneIds<- universeGeneIds<-,MeSHHyperGParams,ANY-method universeGeneIds<-,MeSHHyperGParams,logical-method universeGeneIds<-,MeSHHyperGParams-method
Class "MeSHHyperGResult"meshAnnotation meshAnnotation,MeSHHyperGResult-method meshCategory meshCategory,MeSHHyperGResult-method meshDatabase meshDatabase,MeSHHyperGResult-method MeSHHyperGResult-class meshIds meshIds,MeSHHyperGResult-method meshTerms meshTerms,MeSHHyperGResult-method pvalues pvalues,MeSHHyperGResult-method show show,MeSHHyperGResult-method summary summary,MeSHHyperGResult-method
Hypergeometric Tests for MeSH term associationmeshHyperGTest meshHyperGTest,MeSHHyperGParams-method