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GateFinder

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

Projection-based Gating Strategy Optimization for Flow and Mass Cytometry


Bioconductor version: Development (3.19)

Given a vector of cluster memberships for a cell population, identifies a sequence of gates (polygon filters on 2D scatter plots) for isolation of that cell type.

Author: Nima Aghaeepour <naghaeep at gmail.com>, Erin F. Simonds <erin.simonds at gmail.com>

Maintainer: Nima Aghaeepour <naghaeep at gmail.com>

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

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("GateFinder")

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("GateFinder")
GateFinder PDF R Script
Reference Manual PDF
NEWS Text

Details

biocViews CellBiology, Clustering, FlowCytometry, ImmunoOncology, Software
Version 1.23.0
In Bioconductor since BioC 3.7 (R-3.5) (6 years)
License Artistic-2.0
Depends
Imports splancs, mvoutlier, methods, stats, diptest, flowCore, flowFP
System Requirements
URL
See More
Suggests RUnit, BiocGenerics
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
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Package Archives

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

Source Package GateFinder_1.23.0.tar.gz
Windows Binary GateFinder_1.23.0.zip (64-bit only)
macOS Binary (x86_64) GateFinder_1.23.0.tgz
macOS Binary (arm64) GateFinder_1.23.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/GateFinder
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/GateFinder
Bioc Package Browser https://code.bioconductor.org/browse/GateFinder/
Package Short Url https://bioconductor.org/packages/GateFinder/
Package Downloads Report Download Stats