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 1.1.0
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, S4Vectors, dplyr, magrittr, rlang
LinkingTo
Suggests testthat, knitr, BiocStyle, rmarkdown, patchwork, ggplot2, matrixStats, impute, scater, sva, 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
Links To Me
Build Report  

Package Archives

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

Source Package scp_1.1.0.tar.gz
Windows Binary scp_1.1.0.zip (32- & 64-bit)
macOS 10.13 (High Sierra) scp_1.1.0.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

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