scp

DOI: 10.18129/B9.bioc.scp    

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

Mass Spectrometry-Based Single-Cell Proteomics Data Analysis

Bioconductor version: Development (3.13)

Utility functions for manipulating, processing, and analyzing mass spectrometry-based single-cell proteomics (SCP) data. The package is an extension to the 'QFeatures' package designed for SCP applications.

Author: Christophe Vanderaa [aut, cre] , Laurent Gatto [aut]

Maintainer: Christophe Vanderaa <christophe.vanderaa at uclouvain.be>

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

Installation

To install this package, start R (version "4.1") and enter:

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

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

BiocManager::install("scp")

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("scp")

 

HTML R Script Single Cell Proteomics data processing and analysis
PDF   Reference Manual
Text   NEWS

Details

biocViews CellBasedAssays, GeneExpression, MassSpectrometry, Preprocessing, Proteomics, SingleCell, Software
Version 1.1.5
In Bioconductor since BioC 3.12 (R-4.0) (< 6 months)
License Artistic-2.0
Depends R (>= 4.0), QFeatures
Imports methods, stats, utils, SingleCellExperiment, SummarizedExperiment, MultiAssayExperiment, MsCoreUtils, matrixStats, S4Vectors, dplyr, magrittr, rlang
LinkingTo
Suggests testthat, knitr, BiocStyle, rmarkdown, patchwork, ggplot2, impute, scater, sva, preprocessCore, vsn, uwot
SystemRequirements
Enhances
URL https://UCLouvain-CBIO.github.io/scp
BugReports https://github.com/UCLouvain-CBIO/scp/issues
Depends On Me
Imports Me
Suggests Me scpdata
Links To Me
Build Report  

Package Archives

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

Source Package scp_1.1.5.tar.gz
Windows Binary scp_1.1.5.zip
macOS 10.13 (High Sierra) scp_1.1.5.tgz
Source Repository git clone https://git.bioconductor.org/packages/scp
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/scp
Package Short Url https://bioconductor.org/packages/scp/
Package Downloads Report Download Stats

Documentation »

Bioconductor

R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations: