DOSE

Disease Ontology Semantic and Enrichment analysis

Bioconductor version: 2.10

Implemented five methods proposed by Resnik, Schlicker, Jiang, Lin and Wang respectively for measuring DO semantic similarities, and hypergeometric test for enrichment analysis.

Author: Guangchuang Yu, Li-Gen Wang

Maintainer: Guangchuang Yu <guangchuangyu at gmail.com>

To install this package, start R and enter:

    source("http://bioconductor.org/biocLite.R")
    biocLite("DOSE")

To cite this package in a publication, start R and enter:

    citation("DOSE")

Documentation

PDF R Script An introduction to DOSE
PDF   Reference Manual
Text   NEWS

Details

biocViews Annotation, Bioinformatics, Software
Depends R (>= 2.10)
Imports methods, plyr, qvalue, stats4, AnnotationDbi, DO.db, org.Hs.eg.db, igraph, scales, ggplot2, graphics
Suggests clusterProfiler, GOSemSim, ReactomePA
System Requirements
License Artistic-2.0
URL
Depends On Me
Imports Me clusterProfiler
Suggests Me GOSemSim, ReactomePA
Version 1.2.1
Since Bioconductor 2.9 (R-2.14)

Package Downloads

Package Source DOSE_1.2.1.tar.gz
Windows Binary DOSE_1.2.1.zip (32- & 64-bit)
MacOS 10.5 (Leopard) binary DOSE_1.2.1.tgz
Package Downloads Report Download Stats

Workflows »

Common Bioconductor workflows include:

 

Mailing Lists »

Post questions about Bioconductor packages to our mailing lists. Read the posting guide before posting!

Fred Hutchinson Cancer Research Center