flowPlots: flowPlots: analysis plots and data class for gated flow cytometry data

Graphical displays with embedded statistical tests for gated ICS flow cytometry data, and a data class which stores "stacked" data and has methods for computing summary measures on stacked data, such as marginal and polyfunctional degree data.

Author
N. Hawkins, S. Self
Date of publication
None
Maintainer
N. Hawkins <hawkins@fhcrc.org>
License
Artistic-2.0
Version
1.22.0

View on Bioconductor

Man pages

adultsNeonates
The adultsNeonates example data set of "stacked" data.
computeMarginalData-methods
Method computeMarginalData from Class "StackedData"
computeMarkers-methods
Method computeMarkers from Class "StackedData"
computePFDData-methods
Method computePFDData from Class "StackedData"
computePFDGroupStatsList
Compute Group Stats on PFD Data to Be Used In a Legend
computePFDPartsData-methods
Method computePFDPartsData from Class "StackedData"
computeProfileData-methods
Method computeProfileData from Class "StackedData"
GroupListBoxplot
A Boxplot Function With Embedded Statistical Tests for...
legendPFDStatsGroupNames
Create Group Names With Embedded Stats to Use in a Plot...
makeBarplotData
Prepare Profile Data for a Call to Barplot()
makeDataList
Prepare Data in a Data Frame for a Call to GroupListBoxplot()
makeTernaryData
Prepare PFD Data for a Call to ternaryplot()
marginalData-methods
Method marginalData from Class "StackedData"
marginalDF
An example of marginalData
markerMatrix
An example of the markers data.
markers-methods
Method markers from Class "StackedData"
pfdData-methods
Method pfdData from Class "StackedData"
pfdDF
An example of pfdData
pfdPartsData-methods
Method pfdPartsData from Class "StackedData"
pfdPartsList
An example of pfdPartsData
profileData-methods
Method profileData from Class "StackedData"
profileDF
An example of profileData
readStackedData-methods
Method readStackedData from Class "StackedData"
StackedData-class
Class "StackedData"
stackedData-methods
Method stackedData from Class "StackedData"

Files in this package

flowPlots/DESCRIPTION
flowPlots/INDEX
flowPlots/NAMESPACE
flowPlots/R
flowPlots/R/class.StackedData.HelperFcns.R
flowPlots/R/class.StackedData.R
flowPlots/R/pkg.GroupListBoxplot.R
flowPlots/R/pkg.HelperFcns.R
flowPlots/R/pkg.HelperPlotFcns.R
flowPlots/build
flowPlots/build/vignette.rds
flowPlots/data
flowPlots/data/adultsNeonates.rda
flowPlots/data/marginalDF.rda
flowPlots/data/markerMatrix.rda
flowPlots/data/pfdDF.rda
flowPlots/data/pfdPartsList.rda
flowPlots/data/profileDF.rda
flowPlots/inst
flowPlots/inst/doc
flowPlots/inst/doc/flowPlots.R
flowPlots/inst/doc/flowPlots.Rnw
flowPlots/inst/doc/flowPlots.pdf
flowPlots/inst/extdata
flowPlots/inst/extdata/adultsNeonates.csv
flowPlots/man
flowPlots/man/GroupListBoxplot.Rd
flowPlots/man/StackedData-class.Rd
flowPlots/man/adultsNeonates.Rd
flowPlots/man/computeMarginalData-methods.Rd
flowPlots/man/computeMarkers-methods.Rd
flowPlots/man/computePFDData-methods.Rd
flowPlots/man/computePFDGroupStatsList.Rd
flowPlots/man/computePFDPartsData-methods.Rd
flowPlots/man/computeProfileData-methods.Rd
flowPlots/man/legendPFDStatsGroupNames.Rd
flowPlots/man/makeBarplotData.Rd
flowPlots/man/makeDataList.Rd
flowPlots/man/makeTernaryData.Rd
flowPlots/man/marginalDF.Rd
flowPlots/man/marginalData-methods.Rd
flowPlots/man/markerMatrix.Rd
flowPlots/man/markers-methods.Rd
flowPlots/man/pfdDF.Rd
flowPlots/man/pfdData-methods.Rd
flowPlots/man/pfdPartsData-methods.Rd
flowPlots/man/pfdPartsList.Rd
flowPlots/man/profileDF.Rd
flowPlots/man/profileData-methods.Rd
flowPlots/man/readStackedData-methods.Rd
flowPlots/man/stackedData-methods.Rd
flowPlots/vignettes
flowPlots/vignettes/flowPlots.Rnw
flowPlots/vignettes/theRefs.bib