dSimer

DOI: 10.18129/B9.bioc.dSimer    

This package is for version 3.8 of Bioconductor; for the stable, up-to-date release version, see dSimer.

Integration of Disease Similarity Methods

Bioconductor version: 3.8

dSimer is an R package which provides computation of nine methods for measuring disease-disease similarity, including a standard cosine similarity measure and eight function-based methods. The disease similarity matrix obtained from these nine methods can be visualized through heatmap and network. Biological data widely used in disease-disease associations study are also provided by dSimer.

Author: Min Li <limin at mail.csu.edu.cn>, Peng Ni <nipeng at csu.edu.cn> with contributions from Zhihui Fei and Ping Huang.

Maintainer: Peng Ni <nipeng at csu.edu.cn>

Installation

To install this package, start R (version "3.5") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")
BiocManager::install("dSimer")

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("dSimer")

 

HTML	R Script	Integration of Disease Similarity Methods
PDF		Reference Manual
Text		NEWS

Details

biocViews	Network, Software, Visualization
Version	1.8.0
In Bioconductor since	BioC 3.4 (R-3.3) (2.5 years)
License	GPL (>= 2)
Depends	R (>= 3.3.0), igraph (>= 1.0.1)
Imports	stats, Rcpp (>= 0.11.3), ggplot2, reshape2, GO.db, org.Hs.eg.db, AnnotationDbi, graphics
LinkingTo	Rcpp
Suggests	knitr, rmarkdown, BiocStyle
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package	dSimer_1.8.0.tar.gz
Windows Binary	dSimer_1.8.0.zip (32- & 64-bit)
Mac OS X 10.11 (El Capitan)	dSimer_1.8.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/dSimer
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/dSimer
Package Short Url	http://bioconductor.org/packages/dSimer/
Package Downloads Report	Download Stats