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

Labels normalized cells for CyTOF data and assigns probabilities for each label

Bioconductor version: Development (3.20)

cytofQC is a package for initial cleaning of CyTOF data. It uses a semi-supervised approach for labeling cells with their most likely data type (bead, doublet, debris, dead) and the probability that they belong to each label type. This package does not remove data from the dataset, but provides labels and information to aid the data user in cleaning their data. Our algorithm is able to distinguish between doublets and large cells.

Author: Jill Lundell [aut, cre] , Kelly Street [aut]

Maintainer: Jill Lundell <jflundell at>

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


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:

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biocViews Annotation, SingleCell, Software
Version 1.5.0
In Bioconductor since BioC 3.17 (R-4.3) (1 year)
License Artistic-2.0
Imports CATALYST, flowCore, e1071, EZtune, gbm, ggplot2, hrbrthemes, matrixStats, randomForest, rmarkdown, SingleCellExperiment, stats, SummarizedExperiment, ssc, S4Vectors, graphics, methods
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Follow Installation instructions to use this package in your R session.

Source Package cytofQC_1.5.0.tar.gz
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macOS Binary (x86_64) cytofQC_1.5.0.tgz
macOS Binary (arm64) cytofQC_1.5.0.tgz
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