To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("meshes")
In most cases, you don't need to download the package archive at all.
meshes
|
This package is for version 3.4 of Bioconductor; for the stable, up-to-date release version, see meshes.
MeSH Enrichment and Semantic analyses
Bioconductor version: 3.4
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.
Author: Guangchuang Yu [aut, cre]
Maintainer: Guangchuang Yu <guangchuangyu at gmail.com>
Citation (from within R,
enter citation("meshes")):
Installation
To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("meshes")
Documentation
| HTML | R Script | An introduction to meshes |
| Reference Manual | ||
| Text | NEWS |
Details
| biocViews | Annotation, Clustering, MultipleComparison, Software |
| Version | 1.0.0 |
| In Bioconductor since | BioC 3.4 (R-3.3) (0.5 years) |
| License | Artistic-2.0 |
| Depends | R (>= 3.3.1), DOSE(>= 2.11.7) |
| Imports | AnnotationDbi, GOSemSim(>= 1.99.3), MeSH.db, methods |
| LinkingTo | |
| Suggests | BiocStyle, knitr, MeSH.Cel.eg.db, MeSH.Hsa.eg.db |
| SystemRequirements | |
| Enhances | |
| URL | https://guangchuangyu.github.io/meshes |
| BugReports | https://github.com/GuangchuangYu/meshes/issues |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | meshes_1.0.0.tar.gz |
| Windows Binary | meshes_1.0.0.zip |
| Mac OS X 10.9 (Mavericks) | meshes_1.0.0.tgz |
| Subversion source | (username/password: readonly) |
| Git source | https://github.com/Bioconductor-mirror/meshes/tree/release-3.4 |
| Package Short Url | http://bioconductor.org/packages/meshes/ |
| Package Downloads Report | Download Stats |
Documentation »
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