GateFinder

This package is for version 3.10 of Bioconductor; for the stable, up-to-date release version, see GateFinder.

Projection-based Gating Strategy Optimization for Flow and Mass Cytometry


Bioconductor version: 3.10

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 "3.6") and enter:


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

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 1.6.0
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
Build Report Build Report

Package Archives

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

Source Package GateFinder_1.6.0.tar.gz
Windows Binary GateFinder_1.6.0.zip
Mac OS X 10.11 (El Capitan) GateFinder_1.6.0.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
Old Source Packages for BioC 3.10 Source Archive