PrInCE
This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see PrInCE.
Predicting Interactomes from Co-Elution
Bioconductor version: 3.9
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("PrInCE")):
Installation
To install this package, start R (version "3.6") 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 | ||
| LICENSE | Text |
Details
| biocViews | NetworkInference, Proteomics, Software, SystemsBiology |
| Version | 1.0.1 |
| 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_1.0.1.tar.gz |
| Windows Binary | PrInCE_1.0.1.zip |
| Mac OS X 10.11 (El Capitan) | PrInCE_1.0.1.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/PrInCE |
| Source Repository (Developer Access) | git clone [email protected]: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 3.9 | Source Archive |