pRoloc
This is thereleased version of pRoloc; for the devel version, seepRoloc.
A unifying bioinformatics framework for spatial proteomics
Bioconductor version: Release (3.22)
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("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 appropriateBioconductor 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 | ||
| NEWS | Text | |
| pRoloc, pRolocdata and pRolocGUI | Video |
Details
| biocViews | Classification,Clustering,ImmunoOncology,MassSpectrometry,Proteomics,QualityControl,Software |
| Version | 1.50.0 |
| 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
FollowInstallation instructions to use this package in your R session.
| Source Package | pRoloc_1.50.0.tar.gz |
| Windows Binary (x86_64) | pRoloc_1.50.0.zip |
| macOS Binary (x86_64) | pRoloc_1.50.0.tgz |
| macOS Binary (arm64) | pRoloc_1.50.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/pRoloc |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/pRoloc |
| Bioc Package Browser | https://code.bioconductor.org/browse/pRoloc/ |
| Package Short Url | https://bioconductor.org/packages/pRoloc/ |
| Package Downloads Report | Download Stats |