GOSemSim

GO-terms Semantic Similarity Measures

Bioconductor version: 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 <guangchuangyu at gmail.com>

To install this package, start R and enter:

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

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

    citation("GOSemSim")

Documentation

PDF R Script An introduction to GOSemSim
PDF   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 1.10.2
Since Bioconductor 2.4 (R-2.9)

Package Downloads

Package Source GOSemSim_1.10.2.tar.gz
Windows Binary GOSemSim_1.10.2.zip (32- & 64-bit)
MacOS 10.5 (Leopard) binary GOSemSim_1.10.2.tgz
Package Downloads Report Download Stats

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