Welcome to the new bioconductor.org!

PrInCE

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

Predicting Interactomes from Co-Elution


Bioconductor version: Development (3.19)

PrInCE (Predicting Interactomes from Co-Elution) uses a naive Bayes classifier trained on dataset-derived features to recover protein-protein interactions from co-elution chromatogram profiles. This package contains the R implementation of PrInCE.

Author: Michael Skinnider [aut, trl, cre], R. Greg Stacey [ctb], Nichollas Scott [ctb], Anders Kristensen [ctb], Leonard Foster [aut, led]

Maintainer: Michael Skinnider <michael.skinnider at msl.ubc.ca>

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

Installation

To install this package, start R (version "4.4") and enter:


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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("PrInCE")

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("PrInCE")
Interactome reconstruction from co-elution data with PrInCE HTML R Script
Reference Manual PDF
LICENSE Text

Details

biocViews NetworkInference, Proteomics, Software, SystemsBiology
Version 1.19.0
In Bioconductor since BioC 3.9 (R-3.6) (5 years)
License GPL-3 + file LICENSE
Depends R (>= 3.6.0)
Imports purrr (>= 0.2.4), dplyr (>= 0.7.4), tidyr (>= 0.8.99), forecast (>= 8.2), progress (>= 1.1.2), Hmisc (>= 4.0), naivebayes (>= 0.9.1), robustbase (>= 0.92-7), ranger (>= 0.8.0), LiblineaR (>= 2.10-8), speedglm (>= 0.3-2), tester (>= 0.1.7), magrittr (>= 1.5), Biobase(>= 2.40.0), MSnbase(>= 2.8.3), stats, utils, methods, Rdpack (>= 0.7)
System Requirements
URL
Bug Reports https://github.com/fosterlab/PrInCE/issues
See More
Suggests BiocStyle, knitr, rmarkdown
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report Build Report

Package Archives

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

Source Package PrInCE_1.19.0.tar.gz
Windows Binary PrInCE_1.19.0.zip (64-bit only)
macOS Binary (x86_64) PrInCE_1.19.0.tgz
macOS Binary (arm64)
Source Repository git clone https://git.bioconductor.org/packages/PrInCE
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/PrInCE
Bioc Package Browser https://code.bioconductor.org/browse/PrInCE/
Package Short Url https://bioconductor.org/packages/PrInCE/
Package Downloads Report Download Stats