SubCellBarCode

DOI: 10.18129/B9.bioc.SubCellBarCode    

This is the development version of SubCellBarCode; for the stable release version, see SubCellBarCode.

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

Bioconductor version: Development (3.11)

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 "4.0") and enter:

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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

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")

 

HTML R Script SubCellBarCode R Markdown vignettes
PDF   Reference Manual
Text   NEWS

Details

biocViews Classification, MassSpectrometry, Proteomics, Software
Version 1.3.0
In Bioconductor since BioC 3.9 (R-3.6) (0.5 years)
License GPL-2
Depends R (>= 3.6)
Imports Rtsne, scatterplot3d, caret, e1071, ggplot2, gridExtra, networkD3, ggrepel, graphics, stats
LinkingTo
Suggests knitr, rmarkdown, BiocStyle
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

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

Source Package SubCellBarCode_1.3.0.tar.gz
Windows Binary SubCellBarCode_1.3.0.zip
Mac OS X 10.11 (El Capitan) SubCellBarCode_1.3.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/SubCellBarCode
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/SubCellBarCode
Package Short Url https://bioconductor.org/packages/SubCellBarCode/
Package Downloads Report Download Stats

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