ppiPre: Predict protein-protein interactions based on functional and topological similarities

This package implements several functions useful for computing similarities between proteins based on their GO annotation, KEGG annotation and PPI network topology. It integrates these similarities to predict PPIs using an SVM classifier. Twenty species are supported, including Anopheles, Arabidopsis, Bovine, Canine, Chicken, Chimp, E coli strain K12 and strain Sakai, Fly, Human, Malaria, Mouse, Pig, Rhesus, Rat, Worm, Xenopus, Yeast, Streptomyces coelicolor and Zebrafish.

Version: 1.5
Depends: R (≥ 2.15)
Imports: AnnotationDbi, igraph, e1071
Suggests: GO.db, org.Sc.sgd.db, org.Hs.eg.db, KEGG.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.Sco.eg.db, org.Ss.eg.db, org.Xl.eg.db
Published: 2013-07-28
Author: Yue Deng, Rongjie Shao, Gang Wang, Yuanjun Sun
Maintainer: Yue Deng <anfdeng at 163.com>
License: Artistic-2.0
NeedsCompilation: no
CRAN checks: ppiPre results

Downloads:

Reference manual: ppiPre.pdf
Package source: ppiPre_1.5.tar.gz
OS X binary: not available, see check log.
Windows binary: ppiPre_1.5.zip
Old sources: ppiPre archive