cytofQC

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

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DOI: 10.18129/B9.bioc.cytofQC

Bioconductor version: Development (3.23)

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] ORCID iD ORCID: 0000-0002-6048-4700 , Kelly Street [aut] ORCID iD ORCID: 0000-0001-6379-5013

Maintainer: Jill Lundell <jflundell at gmail.com>

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

Installation

To install this package, start R (version "4.6") and enter:


if (!require("BiocManager", quietly = TRUE))
 install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("cytofQC")

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