SubCellBarCode

This package is for version 3.10 of Bioconductor; for the stable, up-to-date release version, see SubCellBarCode.

SubCellBarCode: Integrated workflow for robust mapping and visualizing whole human spatial proteome


Bioconductor version: 3.10

Mass-Spectrometry based spatial proteomics have enabled the proteome-wide mapping of protein subcellular localization (Orre et al. 2019, Molecular Cell). SubCellBarCode R package robustly classifies proteins into corresponding subcellular localization.

Author: Taner Arslan

Maintainer: Taner Arslan <taner.arslan at ki.se>

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

Installation

To install this package, start R (version "3.6") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("SubCellBarCode")

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("SubCellBarCode")
SubCellBarCode R Markdown vignettes HTML R Script
Reference Manual PDF
NEWS Text

Details

biocViews Classification, MassSpectrometry, Proteomics, Software
Version 1.2.6
In Bioconductor since BioC 3.9 (R-3.6) (5 years)
License GPL-2
Depends R (>= 3.6)
Imports Rtsne, scatterplot3d, caret, e1071, ggplot2, gridExtra, networkD3, ggrepel, graphics, stats, org.Hs.eg.db, AnnotationDbi
System Requirements
URL
See More
Suggests knitr, rmarkdown, BiocStyle
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report Build Report

Package Archives

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

Source Package SubCellBarCode_1.2.6.tar.gz
Windows Binary SubCellBarCode_1.2.6.zip
Mac OS X 10.11 (El Capitan) SubCellBarCode_1.2.6.tgz
Source Repository git clone https://git.bioconductor.org/packages/SubCellBarCode
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/SubCellBarCode
Bioc Package Browser https://code.bioconductor.org/browse/SubCellBarCode/
Package Short Url https://bioconductor.org/packages/SubCellBarCode/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.10 Source Archive