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Bioconductor - pRoloc

pRoloc

This is the released version of pRoloc; for the devel version, see pRoloc.

A unifying bioinformatics framework for spatial proteomics

Bioconductor version: Release (3.21)

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 [aut], Lisa Breckels [aut, cre], Thomas Burger [ctb], Samuel Wieczorek [ctb], Charlotte Hutchings [ctb], Oliver Crook [aut]

Maintainer: Lisa Breckels <lms79 at cam.ac.uk>

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

To install this package, start R (version "4.5") 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

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

browseVignettes("pRoloc")

A transfer learning algorithm for spatial proteomics 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 NEWS Text pRoloc, pRolocdata and pRolocGUI Video Details biocViews Classification, Clustering, ImmunoOncology, MassSpectrometry, Proteomics, QualityControl, Software Version 1.48.0 In Bioconductor since BioC 2.12 (R-3.0) (12.5 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, colorspace System Requirements URL https://github.com/lgatto/pRoloc Bug Reports https://github.com/lgatto/pRoloc/issues See More Suggests testthat, rmarkdown, pRolocdata(>= 1.43.2), roxygen2, xtable, rgl, BiocStyle(>= 2.5.19), hpar(>= 1.41.0), dplyr, akima, fields, vegan, GO.db, AnnotationDbi, Rtsne (>= 0.13), nipals, reshape, magick, umap Linking To Rcpp, RcppArmadillo Enhances 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.

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