DOI: 10.18129/B9.bioc.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>

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


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

if (!require("BiocManager", quietly = TRUE))


For older versions of R, please refer to the appropriate Bioconductor release.


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HTML R Script 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
PDF   Reference Manual
Text   NEWS


biocViews CellBasedAssays, GeneExpression, MassSpectrometry, Preprocessing, Proteomics, SingleCell, Software
Version 1.4.0
In Bioconductor since BioC 3.12 (R-4.0) (1.5 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
Suggests testthat, knitr, BiocStyle, rmarkdown, patchwork, ggplot2, impute, scater, sva, preprocessCore, vsn, uwot
Depends On Me
Imports Me
Suggests Me scpdata
Links To Me
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