scp
This package is for version 3.14 of Bioconductor; for the stable, up-to-date release version, see scp.
Mass Spectrometry-Based Single-Cell Proteomics Data Analysis
Bioconductor version: 3.14
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("scp")
):
Installation
To install this package, start R (version "4.1") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
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")
Advanced usage of `scp` | HTML | R Script |
Load data using readSCP | HTML | R Script |
QFeatures in a nutshell | HTML | R Script |
Single Cell Proteomics data processing and analysis | HTML | R Script |
Reference Manual | ||
NEWS | Text |
Details
biocViews | CellBasedAssays, GeneExpression, MassSpectrometry, Preprocessing, Proteomics, SingleCell, Software |
Version | 1.4.0 |
In Bioconductor since | BioC 3.12 (R-4.0) (3.5 years) |
License | Artistic-2.0 |
Depends | R (>= 4.0), QFeatures(>= 1.3.5) |
Imports | methods, stats, utils, SingleCellExperiment, SummarizedExperiment, MultiAssayExperiment, MsCoreUtils, matrixStats, S4Vectors, dplyr, magrittr, rlang |
System Requirements | |
URL | https://UCLouvain-CBIO.github.io/scp |
Bug Reports | https://github.com/UCLouvain-CBIO/scp/issues |
See More
Suggests | testthat, knitr, BiocStyle, rmarkdown, patchwork, ggplot2, impute, scater, sva, preprocessCore, vsn, uwot |
Linking To | |
Enhances | |
Depends On Me | |
Imports Me | |
Suggests Me | scpdata |
Links To Me | |
Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
Source Package | scp_1.4.0.tar.gz |
Windows Binary | scp_1.4.0.zip |
macOS 10.13 (High Sierra) | scp_1.4.0.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/scp |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/scp |
Bioc Package Browser | https://code.bioconductor.org/browse/scp/ |
Package Short Url | https://bioconductor.org/packages/scp/ |
Package Downloads Report | Download Stats |
Old Source Packages for BioC 3.14 | Source Archive |