This site is a development preview. As such the content and styling may not be final and is subject to change before going into production. To see more information about the redesign click here.

PrInCE

Predicting Interactomes from Co-Elution

Bioconductor version: Release (3.17)

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 "4.3") and enter:

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

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 1.16.0
In Bioconductor since BioC 3.9 (R-3.6) (4.5 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)
Linking To
Suggests BiocStyle, knitr, rmarkdown
System Requirements
Enhances
URL
Bug Reports https://github.com/fosterlab/PrInCE/issues
See More
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

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

Source Package PrInCE_1.16.0.tar.gz
Windows Binary PrInCE_1.16.0.zip
macOS Binary (x86_64) PrInCE_1.16.0.tgz
macOS Binary (arm64) PrInCE_1.16.0.tgz
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
Old Source Packages for BioC 3.17 Source Archive