cytometree: Automated Cytometry Gating and Annotation

Given the hypothesis of a bi-modal distribution of cells for each marker, the algorithm constructs a binary tree, the nodes of which are subpopulations of cells. At each node, observed cells and markers are modeled by both a family of normal distributions and a family of bi-modal normal mixture distributions. Splitting is done according to a normalized difference of AIC between the two families. Method is detailed in: Commenges, Alkhassim, Gottardo, Hejblum & Thiebaut (2018) <doi:10.1002/cyto.a.23601>.

Version: 2.0.2
Depends: R (≥ 3.1.0), Rcpp (≥ 0.12.11)
Imports: ggplot2, graphics, igraph, mclust, methods, stats, cowplot, GoFKernel
LinkingTo: Rcpp, RcppArmadillo
Suggests: knitr, formatR, rmarkdown, viridis
Published: 2019-12-04
DOI: 10.32614/CRAN.package.cytometree
Author: Chariff Alkhassim, Boris P Hejblum, Anthony Devaux, Van Hung Huynh Tran
Maintainer: Boris P Hejblum <boris.hejblum at>
License: LGPL-3 | file LICENSE
NeedsCompilation: yes
Citation: cytometree citation info
Materials: README NEWS
CRAN checks: cytometree results


Reference manual: cytometree.pdf
Vignettes: User guide for performing automatic gating with 'cytometree'
'cytoftree': extension of 'cytometree' to analyze mass cytometry data


Package source: cytometree_2.0.2.tar.gz
Windows binaries: r-devel:, r-release:, r-oldrel:
macOS binaries: r-release (arm64): cytometree_2.0.2.tgz, r-oldrel (arm64): cytometree_2.0.2.tgz, r-release (x86_64): cytometree_2.0.2.tgz, r-oldrel (x86_64): cytometree_2.0.2.tgz
Old sources: cytometree archive

Reverse dependencies:

Reverse imports: cyanoFilter


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