MetaCyto: A package for meta-analysis of cytometry data

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Documentation for package ‘MetaCyto’ version 1.30.0

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

Help Pages

autoCluster.batch	Cluster the preprocessed fcs files from different studies in batch
clusterStats	Derive summary statistics for clusters
collectData	Collect and combine data from multiple csv files of the same format
densityPlot	Draw density plot for each cell cluster.
fcsInfoParser	Organize fcs files in a study from ImmPort into panels
filterLabels	Filter cluster labels
findCutoff	Find cutoff for a 1D distribution
flowHC	Cluster cytometry data using hierarchical clustering
flowSOM.MC	Cluster cytometry data using FlowSOM
glmAnalysis	Perform generalized linear model analysis to estimate effect size.
labelCluster	Label each cluster as "+" or "-" or neutral for each marker
labelSummary	Make a summary for the labels (cell populations) identified in different cytometry panels.
markerFinder	Find markers in a flow frame object
metaAnalysis	Performs meta-analysis
nameUpdator	Used to update marker names
panelSummary	Summarize markers in panels.
plotGA	Plot the result from the glmAnalysis function
preprocessing	Preprocess fcs files from a single experiment
preprocessing.batch	Preprocessing fcs files from different studies in batch.
sampleInfoParser	Collect sample information for fcs files in a study from ImmPort.
searchCluster	Search for clusters using pre-defined labels
searchCluster.batch	Search for clusters using pre-defined labels in cytometry data from different studies in batch
set2Frame	Combine cells in a flow set into a flow frame.