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openCyto

This is the released version of openCyto; for the devel version, see openCyto.

Hierarchical Gating Pipeline for flow cytometry data

Bioconductor version: Release (3.21)

This package is designed to facilitate the automated gating methods in sequential way to mimic the manual gating strategy.

Author: Mike Jiang, John Ramey, Greg Finak, Raphael Gottardo

Maintainer: Mike Jiang <mike at ozette.com>

Citation (from within R, enter citation("openCyto")): Installation

To install this package, start R (version "4.5") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("openCyto")

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

Documentation

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

browseVignettes("openCyto")

Details biocViews DataImport, DataRepresentation, FlowCytometry, ImmunoOncology, Preprocessing, Software Version 2.20.0 In Bioconductor since BioC 2.13 (R-3.0) (11.5 years) License AGPL-3.0-only Depends R (>= 3.5.0) Imports methods, Biobase, BiocGenerics, flowCore(>= 1.99.17), flowViz, ncdfFlow(>= 2.11.34), flowWorkspace(>= 3.99.1), flowClust(>= 3.11.4), RBGL, graph, data.table, RColorBrewer, grDevices System Requirements URL See More Suggests flowWorkspaceData, knitr, rmarkdown, markdown, testthat, utils, tools, parallel, ggcyto, CytoML, flowStats(>= 4.5.2), MASS Linking To cpp11, BH (>= 1.62.0-1) Enhances Depends On Me Imports Me CytoML Suggests Me CATALYST, flowClust, flowCore, flowStats, flowTime, flowWorkspace, ggcyto Links To Me Build Report Build Report Package Archives

Follow Installation instructions to use this package in your R session.

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