pRoloc
This package is for version 3.6 of Bioconductor; for the stable, up-to-date release version, see pRoloc.
A unifying bioinformatics framework for spatial proteomics
Bioconductor version: 3.6
The pRoloc package implements machine learning and visualisation methods for the analysis and interogation of quantitiative mass spectrometry data to reliably infer protein sub-cellular localisation.
Author: Laurent Gatto and Lisa M. Breckels with contributions from Thomas Burger and Samuel Wieczorek
Maintainer: Laurent Gatto <lg390 at cam.ac.uk>
Citation (from within R, enter
citation("pRoloc")):
Installation
To install this package, start R (version "3.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("pRoloc")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
| Reference Manual | |
| NEWS | Text |
| pRoloc, pRolocdata and pRolocGUI | Video |
Details
| biocViews | Classification, Clustering, MassSpectrometry, Proteomics, QualityControl, Software |
| Version | 1.18.0 |
| In Bioconductor since | BioC 2.12 (R-3.0) (11 years) |
| License | GPL-2 |
| Depends | R (>= 2.15), MSnbase(>= 1.19.20), MLInterfaces(>= 1.37.1), methods, Rcpp (>= 0.10.3), BiocParallel |
| Imports | Biobase, mclust (>= 4.3), caret, e1071, sampling, class, kernlab, Rtsne (>= 0.13), lattice, nnet, randomForest, proxy, FNN, hexbin, BiocGenerics, stats, dendextend, RColorBrewer, scales, MASS, knitr, mvtnorm, gtools, plyr, ggplot2, biomaRt, utils, grDevices, graphics |
| System Requirements | |
| URL | https://github.com/lgatto/pRoloc |
| Bug Reports | https://github.com/lgatto/pRoloc/issues |
See More
| Suggests | testthat, rmarkdown, pRolocdata(>= 1.9.4), roxygen2, synapter, xtable, rgl, BiocStyle(>= 2.5.19), hpar(>= 1.15.3), dplyr, GO.db, AnnotationDbi |
| Linking To | Rcpp, RcppArmadillo |
| Enhances | |
| Depends On Me | pRolocGUI |
| Imports Me | |
| Suggests Me | MSnbase, pRolocdata, RforProteomics |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | pRoloc_1.18.0.tar.gz |
| Windows Binary | pRoloc_1.18.0.zip (32- & 64-bit) |
| Mac OS X 10.11 (El Capitan) | pRoloc_1.18.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/pRoloc |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/pRoloc |
| Package Short Url | https://bioconductor.org/packages/pRoloc/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.6 | Source Archive |