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
Author: Chariff Alkhassim, Boris P Hejblum, Anthony Devaux, Van Hung Huynh Tran
Maintainer: Boris P Hejblum <boris.hejblum at u-bordeaux.fr>
BugReports: https://github.com/sistm/Cytometree/issues
License: LGPL-3 | file LICENSE
NeedsCompilation: yes
Citation: cytometree citation info
Materials: README NEWS
CRAN checks: cytometree results

Downloads:

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: cytometree_2.0.2.zip, r-devel-gcc8: cytometree_2.0.0.zip, r-release: cytometree_2.0.0.zip, r-oldrel: cytometree_2.0.0.zip
OS X binaries: r-release: cytometree_2.0.0.tgz, r-oldrel: cytometree_2.0.0.tgz
Old sources: cytometree archive

Linking:

Please use the canonical form https://CRAN.R-project.org/package=cytometree to link to this page.