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A unifying bioinformatics framework for spatial proteomics

Bioconductor version: Release (3.19)

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, Oliver Crook and Lisa M. Breckels with contributions from Thomas Burger and Samuel Wieczorek

Maintainer: Laurent Gatto <laurent.gatto at>

Citation (from within R, enter citation("pRoloc")):


To install this package, start R (version "4.4") and enter:

if (!require("BiocManager", quietly = TRUE))


For older versions of R, please refer to the appropriate Bioconductor release.


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

A transfer learning algorithm for spatial proteomics HTML R Script
Annotating spatial proteomics data HTML R Script
Bayesian spatial proteomics with pRoloc HTML R Script
Machine learning techniques available in pRoloc HTML R Script
Using pRoloc for spatial proteomics data analysis HTML R Script
Reference Manual PDF
pRoloc, pRolocdata and pRolocGUI Video


biocViews Classification, Clustering, ImmunoOncology, MassSpectrometry, Proteomics, QualityControl, Software
Version 1.44.1
In Bioconductor since BioC 2.12 (R-3.0) (11.5 years)
License GPL-2
Depends R (>= 3.5), MSnbase(>= 1.19.20), MLInterfaces(>= 1.67.10), methods, Rcpp (>= 0.10.3), BiocParallel
Imports stats4, Biobase, mclust (>= 4.3), caret, e1071, sampling, class, kernlab, lattice, nnet, randomForest, proxy, FNN, hexbin, BiocGenerics, stats, dendextend, RColorBrewer, scales, MASS, knitr, mvtnorm, LaplacesDemon, coda, mixtools, gtools, plyr, ggplot2, biomaRt, utils, grDevices, graphics
System Requirements
Bug Reports
See More
Suggests testthat, rmarkdown, pRolocdata(>= 1.9.4), roxygen2, xtable, rgl, BiocStyle(>= 2.5.19), hpar(>= 1.41.0), dplyr, akima, fields, vegan, GO.db, AnnotationDbi, Rtsne (>= 0.13), nipals, reshape, magick
Linking To Rcpp, RcppArmadillo
Depends On Me bandle, 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_1.44.1.tar.gz
Windows Binary (64-bit only)
macOS Binary (x86_64) pRoloc_1.44.1.tgz
macOS Binary (arm64) pRoloc_1.44.1.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
Bioc Package Browser
Package Short Url
Package Downloads Report Download Stats
Old Source Packages for BioC 3.19 Source Archive