# Automated Cytometry Gating and Annotation

## Documentation for package ‘cytometree’ version 2.0.2

- DESCRIPTION file.
- User guides, package vignettes and other documentation.

## Help Pages

cytometree-package | Binary tree algorithm for cytometry data analysis.
Annotation | Annotates cell populations found using CytomeTree.
bootstrapCI | Bootstrapped Confidence Interval.
CytofTree | Binary tree algorithm for mass cytometry data analysis.
CytomeTree | Binary tree algorithm for cytometry data analysis.
cytometree | Binary tree algorithm for cytometry data analysis.
DLBCL | Diffuse large B-cell lymphoma data set from the FlowCAP-I challenge.
FmeasureC | C++ implementation of the F-measure computation
FmeasureC_no0 | C++ implementation of the F-measure computation without the reference class labeled "0"
HIPC | HIPC T cell data set from HIPC program, patient 12828. The data was analyzed and gated by Stanford.
IMdata | Influenza vaccine response dataset
plot_cytopop | Plot the cell count for each population using CytomeTree.
plot_graph | Plot the binary tree built using CytomeTree.
plot_nodes | Plot the distribution of the observed cells at each node of the binary tree built using CytomeTree.
RetrievePops | Retrieve cell populations found using Annotation.