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

Peak-based selection of high quality cytometry data

Bioconductor version: Development (3.20)

This is a package that includes pre-processing and quality control functions that can remove margin events, compensate and transform the data and that will use PeacoQCSignalStability for quality control. This last function will first detect peaks in each channel of the flowframe. It will remove anomalies based on the IsolationTree function and the MAD outlier detection method. This package can be used for both flow- and mass cytometry data.

Author: Annelies Emmaneel [aut, cre]

Maintainer: Annelies Emmaneel <annelies.emmaneel at>

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


To install this package, start R (version "4.4") and enter:

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

# The following initializes usage of Bioc devel


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


To view documentation for the version of this package installed in your system, start R and enter:

PeacoQC_Vignette PDF R Script
Reference Manual PDF


biocViews FlowCytometry, PeakDetection, Preprocessing, QualityControl, Software
Version 1.15.0
In Bioconductor since BioC 3.12 (R-4.0) (3.5 years)
License GPL (>=3)
Depends R (>= 4.0)
Imports circlize, ComplexHeatmap, flowCore, flowWorkspace, ggplot2, grDevices, grid, gridExtra, methods, plyr, stats, utils
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Suggests knitr, rmarkdown, BiocStyle
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Follow Installation instructions to use this package in your R session.

Source Package PeacoQC_1.15.0.tar.gz
Windows Binary (64-bit only)
macOS Binary (x86_64) PeacoQC_1.15.0.tgz
macOS Binary (arm64) PeacoQC_1.15.0.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
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