cytometree-package: Binary tree algorithm for cytometry data analysis.
In cytometree: Automated Cytometry Gating and Annotation
Description
Details
Author(s)
References
Description
The algorithm is based on the construction of 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.
Given the unsupervised nature of the binary tree, some of the available
markers may not be used to find the different cell populations present in
a given sample. To recover a complete annotation, we defined, as a post
processing procedure, an annotation method which allows the user to
distinguish two or three expression levels per marker.
Details
Package: cytometree
Type: Package
Version: 2.0.2
Date: 2019-12-04
License: LGPL-3
The main function in this package is CytomeTree.
Author(s)
Chariff Alkhassim, Boris Hejblum, Anthony Devaux, Van Hung Huynh Tran
— Maintainer: Boris Hejblum
References
Commenges D, Alkhassim C, Gottardo R, Hejblum BP, Thiébaut R (2018).
cytometree: a binary tree algorithm for automatic gating in cytometry analysis.
Cytometry Part A, 93(11):1132-1140. <doi: 10.1002/cyto.a.23601>
cytometree documentation built on Dec. 5, 2019, 1:06 a.m.
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Description Details Author(s) References
Description
The algorithm is based on the construction of 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. Given the unsupervised nature of the binary tree, some of the available markers may not be used to find the different cell populations present in a given sample. To recover a complete annotation, we defined, as a post processing procedure, an annotation method which allows the user to distinguish two or three expression levels per marker.
Details
| Package: | cytometree |
| Type: | Package |
| Version: | 2.0.2 |
| Date: | 2019-12-04 |
| License: | LGPL-3 |
The main function in this package is CytomeTree.
Author(s)
Chariff Alkhassim, Boris Hejblum, Anthony Devaux, Van Hung Huynh Tran — Maintainer: Boris Hejblum
References
Commenges D, Alkhassim C, Gottardo R, Hejblum BP, Thiébaut R (2018). cytometree: a binary tree algorithm for automatic gating in cytometry analysis. Cytometry Part A, 93(11):1132-1140. <doi: 10.1002/cyto.a.23601>
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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