meshes
This is the development version of meshes; for the stable release version, see meshes.
MeSH Enrichment and Semantic analyses
Bioconductor version: Development (3.24)
Provides tools for MeSH (Medical Subject Headings) enrichment and semantic similarity analysis. The package uses MeSH term annotations linked to Entrez Gene identifiers through gendoo, gene2pubmed and RBBH, enabling over-representation analysis, gene set enrichment analysis and semantic comparison of gene lists or ranked expression profiles. It implements Resnik, Schlicker, Jiang, Lin and Wang similarity methods for comparing MeSH terms, genes and gene groups across more than 70 species.
Author: Guangchuang Yu [aut, cre]
Maintainer: Guangchuang Yu <guangchuangyu at gmail.com>
citation("meshes")):
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("meshes")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("meshes")| meshes.html | HTML |
| Reference Manual | |
| NEWS | Text |
Details
| biocViews | Annotation, Clustering, MultipleComparison, Software |
| Version | 1.39.1 |
| In Bioconductor since | BioC 3.4 (R-3.3) (9.5 years) |
| License | Artistic-2.0 |
| Depends | R (>= 4.1.0) |
| Imports | enrichit, gson, AnnotationDbi, GOSemSim(> 2.37.0), methods, utils, AnnotationHub, MeSHDbi, yulab.utils (>= 0.1.5) |
| System Requirements | |
| URL | https://yulab-smu.top/biomedical-knowledge-mining-book/ |
| Bug Reports | https://github.com/YuLab-SMU/meshes/issues |
See More
| Suggests | knitr, quarto |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | meshes_1.39.1.tar.gz |
| Windows Binary (x86_64) | meshes_1.39.1.zip |
| macOS Binary (big-sur-x86_64) | meshes_1.39.1.tgz |
| macOS Binary (sonoma-arm64) | meshes_1.39.1.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/meshes |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/meshes |
| Bioc Package Browser | https://code.bioconductor.org/browse/meshes/ |
| Package Short Url | https://bioconductor.org/packages/meshes/ |
| Package Downloads Report | Download Stats |