SubCellBarCode
This package is for version 3.11 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: 3.11
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("SubCellBarCode")):
Installation
To install this package, start R (version "4.0") 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 | ||
| NEWS | Text |
Details
| biocViews | Classification, MassSpectrometry, Proteomics, Software |
| Version | 1.4.0 |
| 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_1.4.0.tar.gz |
| Windows Binary | SubCellBarCode_1.4.0.zip |
| macOS 10.13 (High Sierra) | SubCellBarCode_1.4.0.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 3.11 | Source Archive |