Package: GateFinder 1.27.0

Nima Aghaeepour

GateFinder: Projection-based Gating Strategy Optimization for Flow and Mass Cytometry

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.

Authors:Nima Aghaeepour <[email protected]>, Erin F. Simonds <[email protected]>

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GateFinder.pdf |GateFinder.html✨
GateFinder/json (API)
NEWS

# Install 'GateFinder' in R:

install.packages('GateFinder', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))

Datasets:

marker.names - LPSData
prop.markers - LPSData
rawdata - LPSData

On BioConductor:GateFinder-1.25.0(bioc 3.20)GateFinder-1.24.0(bioc 3.19)

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

immunooncology flowcytometry cellbiology clustering

3.30 score 7 scripts 202 downloads 3 exports 32 dependencies

Last updated 26 days agofrom:77959e6832. Checks:OK: 1 WARNING: 6. Indexed: yes.

Target	Result	Date
Doc / Vignettes	OK	Oct 30 2024
R-4.5-win	WARNING	Oct 30 2024
R-4.5-linux	WARNING	Oct 30 2024
R-4.4-win	WARNING	Oct 30 2024
R-4.4-mac	WARNING	Oct 30 2024
R-4.3-win	WARNING	Oct 30 2024
R-4.3-mac	WARNING	Oct 30 2024

Exports:GateFinder plot plot.GateFinder

Dependencies:BH Biobase BiocGenerics cpp11 cytolib deldir DEoptimR diptest flowCore flowFP flowViz hexbin IDPmisc interp jpeg KernSmooth lattice latticeExtra MASS matrixStats mvoutlier png RColorBrewer Rcpp RcppEigen Rhdf5lib robustbase RProtoBufLib S4Vectors sgeostat sp splancs

GateFinder

Rendered fromGateFinder.Rnwusingutils::Sweaveon Oct 30 2024.

Last update: 2018-09-17
Started: 2018-04-02

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
GateFinder	GateFinder-package
GateFinder	GateFinder
Class '"GatingProjection"'	GatingProjection GatingProjection-class plot,GatingProjection,ANY-method plot,matrix,GatingProjection-method
LPSData	LPSData marker.names prop.markers rawdata
plot.GateFinder	plot.GateFinder