GOSemSim

GO-terms Semantic Similarity Measures

Bioconductor version: Development (2.8)

Implemented five methods proposed by Resnik, Schlicker, Jiang, Lin and Wang respectively for estimating GO semantic similarities. Support many species, including Anopheles, Arabidopsis, Bovine, Canine, Chicken, Chimp, Coelicolor, E coli strain K12 and Sakai, Fly, Human, Malaria, Mouse, Pig, Rhesus, Rat, Worm, Xenopus, Yeast, and Zebrafish.

Author: Guangchuang Yu

Maintainer: Guangchuang Yu

To install this package, start R and enter:

source("http:///biocLite.R")
biocLite("GOSemSim")    

Documentation

PDF

R Script

An introduction to GOSemSim

Reference Manual

Details

biocViews	GO, Clustering, Pathways, Anopheles_gambiae, Arabidopsis_thaliana, Bos_taurus, Caenorhabditis_elegans, Canis_familiaris, Danio_rerio, Drosophila_melanogaster, Escherichia_coli, Gallus_gallus, Homo_sapiens, Mus_musculus, Pan_troglodytes, Plasmodium_falciparum, Rattus_norvegicus, Saccharomyces_cerevisiae, Streptomyces_coelicolor, Sus_scrofa, Xenopus_laevis
Depends
Imports	methods, AnnotationDbi, GO.db, org.Hs.eg.db, org.Ag.eg.db, org.At.tair.db, org.Bt.eg.db, org.Ce.eg.db, org.Cf.eg.db, org.Dm.eg.db, org.Dr.eg.db, org.EcK12.eg.db, org.EcSakai.eg.db, org.Gg.eg.db, org.Mm.eg.db, org.Mmu.eg.db, org.Pf.plasmo.db, org.Pt.eg.db, org.Rn.eg.db, org.Sc.sgd.db, org.Sco.eg.db, org.Ss.eg.db, org.Xl.eg.db
Suggests	clusterProfiler
System Requirements
License	GPL-2
URL
Depends On Me
Imports Me
Suggests Me	clusterProfiler
Version	1.9.13

Package Downloads

Package Source	GOSemSim_1.9.13.tar.gz
Windows Binary	GOSemSim_1.9.13.zip (32- & 64-bit)
MacOS 10.5 (Leopard) binary	GOSemSim_1.9.13.tgz
Package Downloads Report	Download Stats