meshes: MeSH Enrichment and Semantic analyses

MeSH (Medical Subject Headings) is the NLM controlled vocabulary used to manually index articles for MEDLINE/PubMed. MeSH terms were associated by Entrez Gene ID by three methods, gendoo, gene2pubmed and RBBH. This association is fundamental for enrichment and semantic analyses. meshes supports enrichment analysis (over-representation and gene set enrichment analysis) of gene list or whole expression profile. The semantic comparisons of MeSH terms provide quantitative ways to compute similarities between genes and gene groups. meshes implemented five methods proposed by Resnik, Schlicker, Jiang, Lin and Wang respectively and supports more than 70 species.

Install the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("meshes")
AuthorGuangchuang Yu [aut, cre]
Bioconductor views Annotation Clustering MultipleComparison Software
Date of publicationNone
MaintainerGuangchuang Yu <guangchuangyu@gmail.com>
LicenseArtistic-2.0
Version1.0.0
https://guangchuangyu.github.io/meshes

View on Bioconductor

Files

.svnignore
DESCRIPTION
NAMESPACE
NEWS
R
R/DOSE.R R/enrichMeSH.R R/geneSim.R R/gseMeSH.R R/meshSim.R R/meshes.R R/utilities.R R/zzz.R
README.md
build
build/vignette.rds
data
data/hsamd.rda
data/meshtbl.rda
inst
inst/doc
inst/doc/meshes.R
inst/doc/meshes.Rmd
inst/doc/meshes.html
inst/extdata
inst/extdata/build_meshtbl.R
man
man/enrichMeSH.Rd man/geneSim.Rd man/gseMeSH.Rd man/meshSim.Rd man/mesh_term_table.Rd man/meshdata.Rd
vignettes
vignettes/meshes.Rmd
vignettes/meshes.bib
vignettes/nature.csl

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