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
meshr_2.19.0.zip(r-4.7)meshr_2.19.0.zip(r-4.6)meshr_2.19.0.zip(r-4.5)
meshr_2.19.0.tgz(r-4.6-any)meshr_2.19.0.tgz(r-4.5-any)
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meshr_2.19.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
meshr/json (API)

# 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)

annotationdata functionalannotation bioinformatics statistics annotation multiplecomparisons meshdb

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.

Target	Result	Time
bioc-checks	ERROR	204
linux-devel-x86_64	NOTE	313
source / vignettes	OK	231
linux-release-x86_64	NOTE	257
macos-release-arm64	NOTE	172
macos-oldrel-arm64	NOTE	134
windows-devel	NOTE	188
windows-release	NOTE	223
windows-oldrel	NOTE	196
wasm-release	OK	139

Exports:annotation annotation<-category category<-database database<-geneIds initialize makeValidParams meshAnnotation meshCategory meshDatabase meshHyperGTest meshIds pAdjust pAdjust<-pvalueCutoff pvalueCutoff<-show summary universeGeneIds universeGeneIds<-

Dependencies:annotate AnnotationDbi askpass base64enc BH Biobase BiocGenerics BiocManager BiocStyle Biostrings bit bit64 blob bookdown bslib cachem Category cli commonmark cpp11 crayon curl DBI digest evaluate fastmap fdrtool fontawesome fs genefilter generics glue graph GSEABase highr htmltools httr IRanges jquerylib jsonlite KEGGREST knitr lattice lifecycle litedown markdown Matrix MatrixGenerics matrixStats memoise MeSHDbi mime openssl pkgconfig png R6 rappdirs RBGL rlang rmarkdown RSQLite S4Vectors sass Seqinfo survival sys tinytex vctrs xfun XML xtable XVector yaml

AnnotationHub-style MeSH ORA Framework from BioC 3.14

Rendered fromMeSH.Rmdusingknitr::rmarkdown

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

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Enrichment analysis for MeSH terms.	meshr-package meshr
A function to return the name of MeSH category	category category,MeSHHyperGParams-method category<- category<-,MeSHHyperGParams,character-method generic,category
A function to return the name of MeSH database	database 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 association	meshHyperGTest meshHyperGTest,MeSHHyperGParams-method