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flowGate

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

Interactive Cytometry Gating in R


Bioconductor version: Development (3.19)

flowGate adds an interactive Shiny app to allow manual GUI-based gating of flow cytometry data in R. Using flowGate, you can draw 1D and 2D span/rectangle gates, quadrant gates, and polygon gates on flow cytometry data by interactively drawing the gates on a plot of your data, rather than by specifying gate coordinates. This package is especially geared toward wet-lab cytometerists looking to take advantage of R for cytometry analysis, without necessarily having a lot of R experience.

Author: Andrew Wight [aut, cre], Harvey Cantor [aut, ldr]

Maintainer: Andrew Wight <andrew.wight10 at gmail.com>

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

Installation

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


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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("flowGate")

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("flowGate")
flowGate HTML R Script
Reference Manual PDF
NEWS Text
LICENSE Text

Details

biocViews DataImport, FlowCytometry, ImmunoOncology, Preprocessing, Software, WorkflowStep
Version 1.3.0
In Bioconductor since BioC 3.17 (R-4.3) (1 year)
License MIT + file LICENSE
Depends flowWorkspace(>= 4.0.6), ggcyto(>= 1.16.0), R (>= 4.2)
Imports shiny (>= 1.5.0), BiocManager (>= 1.30.10), flowCore(>= 2.0.1), dplyr (>= 1.0.0), ggplot2 (>= 3.3.2), rlang (>= 0.4.7), purrr, tibble, methods
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Suggests knitr, rmarkdown, stringr, tidyverse, testthat
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Package Archives

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

Source Package flowGate_1.3.0.tar.gz
Windows Binary flowGate_1.3.0.zip (64-bit only)
macOS Binary (x86_64) flowGate_1.3.0.tgz
macOS Binary (arm64) flowGate_1.3.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/flowGate
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/flowGate
Bioc Package Browser https://code.bioconductor.org/browse/flowGate/
Package Short Url https://bioconductor.org/packages/flowGate/
Package Downloads Report Download Stats