ppiPre (version 1.9)

ppiPre-package: Predicting protein-protein interactions

Description

Predicting protein-protein interactions based on functional and topologic similarities

Details

This package integrates functions for computing similarities between proteins based on their GO annotation, KEGG annotation and PPI network topology. It integrates seven features(TCSS, IntelliGO, Wang, KEGG, Jaccard, RA and AA) to predict PPIs using an SVM classifier. Some internal functions to manipulate GO.db are re-used from R package GOSemSim authored by Guangchuang Yu .

Package:

ppiPre

Type:

Package

Version:

1.9

Date:

2015-07-21

Depends:

R (>= 3.1.0)

Imports:

AnnotationDbi, igraph, e1071, GOSemSim, GO.db

Enhances:

org.Sc.sgd.db, org.Ag.eg.db, org.Xl.eg.db, org.Ss.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, KEGG.db, org.Hs.eg.db

License:

GPL-2

LazyLoad:

yes

See Also

GOKEGGSims IntelliGOGeneSim TCSSGeneSim SVMPredict TopologicSims