Package: Path2PPI 1.35.0
Oliver Philipp
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.
Authors:
Path2PPI_1.35.0.tar.gz
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Path2PPI_1.35.0.tgz(r-4.4-any)Path2PPI_1.35.0.tgz(r-4.3-any)
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Path2PPI.pdf |Path2PPI.html✨
Path2PPI/json (API)
NEWS
| # Install 'Path2PPI' in R: |
| install.packages('Path2PPI', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
- human.ai.irefindex - Data set to predict autophagy induction in _Podospora anserina_
- human.ai.proteins - Data set to predict autophagy induction in _Podospora anserina_
- pa2human.ai.homologs - Data set to predict autophagy induction in _Podospora anserina_
- pa2yeast.ai.homologs - Data set to predict autophagy induction in _Podospora anserina_
- yeast.ai.irefindex - Data set to predict autophagy induction in _Podospora anserina_
- yeast.ai.proteins - Data set to predict autophagy induction in _Podospora anserina_
On BioConductor:Path2PPI-1.35.0(bioc 3.20)Path2PPI-1.34.0(bioc 3.19)
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
Last updated 2 months agofrom:07a3c56383
Exports:addReferencegetHybridNetworkgetPPIhomologyScorePath2PPIplot.Path2PPIpredictPPIremoveReferenceshowInteractionshowReferences
Dependencies:clicpp11glueigraphlatticelifecyclemagrittrMatrixpkgconfigrlangvctrs
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Add reference species | addReference |
| Data set to predict autophagy induction in _Podospora anserina_ | ai human.ai.irefindex human.ai.proteins pa2human.ai.homologs pa2yeast.ai.homologs yeast.ai.irefindex yeast.ai.proteins |
| Get hybrid network of the predicted PPI | getHybridNetwork |
| Get predicted PPI | getPPI |
| Computes homology scores | homologyScore |
| Class '"Path2PPI"' | addReference,Path2PPI-method getHybridNetwork,Path2PPI-method getPPI,Path2PPI-method initialize,Path2PPI-method Path2PPI Path2PPI-class plot.Path2PPI,Path2PPI-method predictPPI,Path2PPI-method removeReference,Path2PPI-method show,Path2PPI-method showInteraction,Path2PPI-method showReferences,Path2PPI-method |
| Plots the predicted PPI | plot.Path2PPI |
| Prediction of the PPI | predictPPI |
| Remove reference species | removeReference |
| Information about an interaction | showInteraction showInteraction-methods |
| Information about reference species | showReferences |