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) .


Reference manual

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install.packages("cytometree")

2.0.6 by Boris P Hejblum, a year ago


https://sistm.github.io/cytometree/, https://github.com/sistm/Cytometree/


Report a bug at https://github.com/sistm/Cytometree/issues


Browse source code at https://github.com/cran/cytometree


Authors: Chariff Alkhassim [aut] , Boris P Hejblum [cre, aut] , Anthony Devaux [aut] , Van Hung Huynh Tran [aut] , Melany Durand [aut]


Documentation:   PDF Manual  


LGPL-3 | file LICENSE license


Imports ggplot2, graphics, igraph, mclust, methods, stats, cowplot, GoFKernel

Depends on Rcpp

Suggests knitr, formatR, rmarkdown, viridis, testthat

Linking to Rcpp, RcppArmadillo


See at CRAN