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cytofkit (version 1.4.8)

cytofkit: an integrated mass cytometry data analysis pipeline

Description

An integrated mass cytometry data analysis pipeline that enables simultaneous illustration of cellular diversity and progression.

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Version

Version

1.4.8

License

Artistic-2.0

Maintainer

Jinmiao Chen

Last Published

February 15th, 2017

Functions in cytofkit (1.4.8)

ClusterX

Fast clustering by automatic search and find of density peaks
cytof_addToFCS

Add data to the original FCS files
cytof_writeResults

Save the cytofkit analysis results
cytofkit_GUI

The user friendly GUI client for cytofkit-package
cytof_cluster

Subset detection by clustering
cytofkit-package

cytofkit: an integrated mass cytometry data analysis pipeline
cytofkit

cytofkit: an integrated mass cytometry data analysis pipeline
cytof_clusterPlot

Scatter plot of the cluster results
cytof_clusterStat

Statistics of the cluster relusts
cytof_colorPlot

Plot the data with color-coded marker values
cytof_progression

Progression estimation of cytof expression data
cytof_progressionPlot

Progression plot
cytof_dimReduction

Dimension reduction for high dimensional data
cytof_exprsExtract

Extract the expression data from a FCS file with preprocessing
DensVM

Density-based local maxima cluster with SVM
getParameters_GUI

GUI for marker selection
cytof_exprsMerge

Merge the expression matrix from multiple FCS files with preprocessing
cytof_heatmap

Heatmap plot of cluster mean value results
cytofkitShinyAPP

A Shiny app to interactively visualize the analysis results
cytofkitNews

check the package update news
launchShinyAPP_GUI

GUI for launching shiny APP
Rphenograph

RphenoGraph clustering