SubCellBarCode

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

All versions

3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11, 3.10, 3.9

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

Bioconductor version: Development (3.24)

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")):

Taner Arslan. SubCellBarCode: SubCellBarCode: Integrated workflow for robust mapping and visualizing whole human spatial proteome. doi:10.18129/B9.bioc.SubCellBarCode, R package version 1.29.0, https://bioconductor.org/packages/SubCellBarCode.

Generated from the package metadata; it may differ from the package's own citation.

Installation

To install this package, start R (version "4.6") and enter:

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

## The following initializes the development version of Bioconductor
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")

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

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	Classification, MassSpectrometry, Proteomics, Software
Version	1.29.0
In Bioconductor since	BioC 3.9 (R-3.6) (7.5 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

Suggests	knitr, rmarkdown, BiocStyle
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report	Build Report, r-universe

Package Archives

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

Source Package	SubCellBarCode_1.29.0.tar.gz
Windows Binary (x86_64)	SubCellBarCode_1.29.0.zip
macOS Binary (big-sur-x86_64)	SubCellBarCode_1.29.0.tgz
macOS Binary (sonoma-arm64)	SubCellBarCode_1.29.0.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