Path2PPI

This is the development version of Path2PPI; for the stable release version, see Path2PPI.

All versions

3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11, 3.10, 3.9, 3.8, 3.7, 3.6, 3.5, 3.4, 3.3, 3.2

Prediction of pathway-related protein-protein interaction networks

Bioconductor version: Development (3.24)

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.

Author: Oliver Philipp [aut, cre], Ina Koch [ctb]

Maintainer: Oliver Philipp <contact at oliverphilipp.info>

Citation (from within R, enter citation("Path2PPI")):

Oliver Philipp. Path2PPI: Prediction of pathway-related protein-protein interaction networks. doi:10.18129/B9.bioc.Path2PPI, R package version 1.43.0, https://bioconductor.org/packages/Path2PPI.

Generated from the package metadata; it may differ from the package's own citation.

Installation

To install this package, start R (version "4.6") and enter:

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

## The following initializes the development version of Bioconductor
BiocManager::install(version = "devel")

BiocManager::install("Path2PPI")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("Path2PPI")

Path2PPI - A brief tutorial	HTML	R Script
Reference Manual	PDF
NEWS	Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	Network, NetworkInference, Pathways, Proteomics, Software, SystemsBiology
Version	1.43.0
In Bioconductor since	BioC 3.2 (R-3.2) (11 years)
License	GPL (>= 2)
Depends	R (>= 3.2.1), igraph (>= 1.0.1), methods
Imports
System Requirements
URL	http://www.bioinformatik.uni-frankfurt.de/

Suggests	knitr, rmarkdown, RUnit, BiocGenerics, BiocStyle
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report	Build Report, r-universe

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package	Path2PPI_1.43.0.tar.gz
Windows Binary (x86_64)	Path2PPI_1.43.0.zip
macOS Binary (big-sur-x86_64)	Path2PPI_1.43.0.tgz
macOS Binary (sonoma-arm64)	Path2PPI_1.43.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/Path2PPI
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/Path2PPI
Package Short Url	https://bioconductor.org/packages/Path2PPI/
Package Downloads Report	Download Stats