dSimer

DOI: 10.18129/B9.bioc.dSimer    

Integration of Disease Similarity Methods

Bioconductor version: Release (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>

Citation (from within R, enter citation("dSimer")):

Installation

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

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")
BiocManager::install("dSimer", version = "3.8")

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 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

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