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Spillover Compensation for Mass Cytometry Data

Bioconductor version: Development (3.19)

Channel interference in mass cytometry can cause spillover and may result in miscounting of protein markers. We develop a nonparametric finite mixture model, and use the mixture components to estimate the probability of spillover. We implement our method using expectation-maximization to fit the mixture model.

Author: Marco Guazzini [aut, cre] , Alexander G. Reisach [aut], Sebastian Weichwald [aut] , Christof Seiler [aut]

Maintainer: Marco Guazzini <m.guazzini at student.maastrichtuniversity.nl>

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biocViews FlowCytometry, ImmunoOncology, MassSpectrometry, Preprocessing, Regression, SingleCell, Software, StatisticalMethod, Visualization
Version 0.99.5
In Bioconductor since BioC 3.19 (R-4.4)
License LGPL-3
Depends R (>= 4.3.0), SummarizedExperiment, CATALYST
Imports dplyr, tibble, tidyselect, stats, ggplot2, tidyr, spatstat.geom, S4Vectors
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Suggests knitr, rmarkdown, cowplot, testthat (>= 3.0.0), BiocStyle, magick, hexbin
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Source Package spillR_0.99.5.tar.gz
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