PrInCE

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

Predicting Interactomes from Co-Elution

Platform availability badge Ranking badge Support activity badge Years in BioConductor badge Build results badge Last commit badge Dependency count badge

DOI: 10.18129/B9.bioc.PrInCE

Bioconductor version: Development (3.23)

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 "4.6") 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

Need some help? Ask on the Bioconductor Support site!

Details

biocViews NetworkInference, Proteomics, Software, SystemsBiology

Version 1.27.0

In Bioconductor since BioC 3.9 (R-3.6) (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

Suggests BiocStyle, knitr, rmarkdown

Linking To

Enhances

Depends On Me

Imports Me

Suggests Me

Links To Me

Build Report Build Report