To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("pRoloc")

In most cases, you don't need to download the package archive at all.

pRoloc

 

   

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

A unifying bioinformatics framework for spatial proteomics

Bioconductor version: Development (3.4)

This package implements pattern recognition techniques on quantitiative mass spectrometry data to 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 and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("pRoloc")

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("pRoloc")

 

PDF R Script A transfer learning algorithm for spatial proteomics
PDF R Script HUPO 2011 poster: pRoloc -- A unifying bioinformatics framework for organelle proteomics
PDF R Script HUPO 2014 poster: A state-of-the-art machine learning pipeline for the analysis of spatial proteomics data
PDF Machine learning techniques available in pRoloc
PDF pRoloc tutorial
HTML R Script Annotating spatial proteomics data
PDF   Reference Manual
Video   pRoloc, pRolocdata and pRolocGUI

Details

biocViews Classification, Clustering, MassSpectrometry, Proteomics, QualityControl, Software
Version 1.13.10
In Bioconductor since BioC 2.12 (R-3.0) (3.5 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, lattice, nnet, randomForest, proxy, FNN, BiocGenerics, stats, RColorBrewer, scales, MASS, knitr, mvtnorm, gtools, plyr, ggplot2, biomaRt, utils, grDevices, graphics
LinkingTo Rcpp, RcppArmadillo
Suggests testthat, pRolocdata(>= 1.9.4), roxygen2, synapter, xtable, tsne, BiocStyle, hpar, dplyr, GO.db, AnnotationDbi
SystemRequirements
Enhances
URL https://github.com/lgatto/pRoloc
BugReports https://github.com/lgatto/pRoloc/issues
Depends On Me pRolocGUI
Imports Me
Suggests Me MSnbase, pRolocdata, RforProteomics
Build Report  

Package Archives

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

Package Source pRoloc_1.13.10.tar.gz
Windows Binary pRoloc_1.13.8.zip (32- & 64-bit)
Mac OS X 10.9 (Mavericks) pRoloc_1.13.10.tgz
Subversion source (username/password: readonly)
Git source https://github.com/Bioconductor-mirror/pRoloc
Package Short Url http://bioconductor.org/packages/pRoloc/
Package Downloads Report Download Stats

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