Path2PPI: Prediction of pathway-related protein-protein interaction networks

Package to predict protein-protein interaction (PPI) networks in target organisms for which only a view information about PPIs is available. Path2PPI predicts PPI networks based on sets of proteins which can belong to a certain pathway from well-established model organisms. It helps to combine and transfer information of a certain pathway or biological process from several reference organisms to one target organism. Path2PPI only depends on the sequence similarity of the involved proteins.

AuthorOliver Philipp [aut, cre], Ina Koch [ctb]
Date of publicationNone
MaintainerOliver Philipp <contact@oliverphilipp.info>
LicenseGPL (>= 2)
Version1.4.0
http://www.bioinformatik.uni-frankfurt.de/

View on Bioconductor

Functions

addReference Man page
addReference,Path2PPI-method Man page
ai Man page
getHybridNetwork Man page
getHybridNetwork,Path2PPI-method Man page
getPPI Man page
getPPI,Path2PPI-method Man page
homologyScore Man page
human.ai.irefindex Man page
human.ai.proteins Man page
initialize,Path2PPI-method Man page
pa2human.ai.homologs Man page
pa2yeast.ai.homologs Man page
Path2PPI Man page
Path2PPI-class Man page
plot.Path2PPI Man page
plot.Path2PPI,Path2PPI-method Man page
predictPPI Man page
predictPPI,Path2PPI-method Man page
removeReference Man page
removeReference,Path2PPI-method Man page
showInteraction Man page
showInteraction-methods Man page
showInteraction,Path2PPI-method Man page
show,Path2PPI-method Man page
showReferences Man page
showReferences,Path2PPI-method Man page
yeast.ai.irefindex Man page
yeast.ai.proteins Man page

Files

Path2PPI/CITATION
Path2PPI/DESCRIPTION
Path2PPI/NAMESPACE
Path2PPI/NEWS
Path2PPI/R
Path2PPI/R/AllClasses.R Path2PPI/R/AllGenerics.R Path2PPI/R/initialize-methods.R Path2PPI/R/private_methods.R Path2PPI/R/public_methods.R Path2PPI/R/show-methods.R
Path2PPI/build
Path2PPI/build/vignette.rds
Path2PPI/data
Path2PPI/data/ai.rda
Path2PPI/inst
Path2PPI/inst/doc
Path2PPI/inst/doc/Path2PPI-tutorial.R
Path2PPI/inst/doc/Path2PPI-tutorial.Rmd
Path2PPI/inst/doc/Path2PPI-tutorial.html
Path2PPI/inst/unitTests
Path2PPI/inst/unitTests/test_various.R
Path2PPI/man
Path2PPI/man/Path2PPI.Rd Path2PPI/man/addReference.Rd Path2PPI/man/ai.Rd Path2PPI/man/getHybridNetwork.Rd Path2PPI/man/getPPI.Rd Path2PPI/man/homologyScore.Rd Path2PPI/man/plot.Path2PPI.Rd Path2PPI/man/predictPPI.Rd Path2PPI/man/removeReference.Rd Path2PPI/man/showInteraction.Rd Path2PPI/man/showReferences.Rd
Path2PPI/tests
Path2PPI/tests/runTests.R
Path2PPI/vignettes
Path2PPI/vignettes/Path2PPI-tutorial.Rmd
Path2PPI/vignettes/figures
Path2PPI/vignettes/figures/algorithm.png

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

Please suggest features or report bugs with the GitHub issue tracker.

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