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
Text   README
Text   NEWS
Video   pRoloc, pRolocdata and pRolocGUI

Details

biocViews Classification, Clustering, MassSpectrometry, Proteomics, QualityControl, Software
Version 1.13.5
In Bioconductor since BioC 2.12 (R-3.0) (3 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_1.13.5.tar.gz
Windows Binary pRoloc_1.13.4.zip (32- & 64-bit)
Mac OS X 10.9 (Mavericks) pRoloc_1.13.5.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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