plateCore: Statistical tools and data structures for plate-based flow cytometry

Provides basic S4 data structures and routines for analyzing plate based flow cytometry data.

Install the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("plateCore")
AuthorErrol Strain, Florian Hahne, and Perry Haaland
Bioconductor views CellBasedAssays FlowCytometry Infrastructure
Date of publicationNone
MaintainerErrol Strain <estrain@gmail.com>
LicenseArtistic-2.0
Version1.32.0
http://www.bioconductor.org

View on Bioconductor

Functions

applyControlGates Man page
applyControlGates,flowPlate-method Man page
applyControlGates-methods Man page
compensate Man page
compensate,flowPlate,ANY-method Man page
compensate-method Man page
compensationSet Man page
densityplot Man page
densityplot,formula,flowPlate,ANY,ANY,ANY,missing-method Man page
densityplot,formula,flowPlate-method Man page
densityplot-method Man page
fixAutoFl Man page
fixAutoFl,flowPlate-method Man page
fixAutoFl-method Man page
flowPlate Man page
[,flowPlate,ANY-method Man page
[[,flowPlate,ANY-method Man page
flowPlate-class Man page
flowPlate,flowSet-method Man page
flowPlate-method Man page
fpbind Man page
fpbind,flowPlate,flowPlate-method Man page
fpbind-method Man page
getGroups Man page
getGroups,flowPlate-method Man page
getGroups-method Man page
gutterPlot Man page
gutterPlot,flowPlate-method Man page
gutterPlot-method Man page
mfiPlot Man page
mfiPlot,flowPlate-method Man page
mfiPlot-method Man page
\%on\% Man page
\%on\%,ANY,flowPlate-method Man page
\%on\%-methods Man page
panel.densityplot.flowPlate Man page
panel.xyplot.flowPlate Man page
pbmcPlate Man page
phenoData,flowPlate-method Man page
plateCore Man page
plateCore-package Man page
plateSet Man page
plateSet,flowPlate-method Man page
plateSet-method Man page
plotPlate Man page
plotPlate,flowPlate-method Man page
plotPlate-method Man page
prepanel.densityplot.flowPlate Man page
prepanel.xyplot.flowPlate Man page
sampleNames,flowPlate-method Man page
setControlGates Man page
setControlGates,flowPlate-method Man page
setControlGates-method Man page
Subset Man page
Subset,flowPlate,ANY-method Man page
Subset,flowPlate-method Man page
Subset-method Man page
summaryStats Man page
summaryStats,flowPlate-method Man page
summaryStats-method Man page
wellAnnotation Man page
wellAnnotation,flowPlate-method Man page
wellAnnotation-method Man page
xyplot Man page
xyplot,formula,flowPlate-method Man page
xyplot-method Man page

Files

DESCRIPTION
NAMESPACE
R
R/AllClasses.R R/AllGenerics.R R/densityplotFlowPlate.R R/flowPlate-accessors.R R/flowPlate-plotting.R R/flowPlate-utilities.R R/utilities.R R/xyplotFlowPlate.R
build
build/vignette.rds
data
data/plateCore.rda
inst
inst/doc
inst/doc/plateCoreVig.R
inst/doc/plateCoreVig.Rnw
inst/doc/plateCoreVig.pdf
man
man/Subset-methods.Rd man/applyControlGates-methods.Rd man/compensate-methods.Rd man/compensationSet.Rd man/densityplot-methods.Rd man/fixAutoFl-methods.Rd man/flowPlate-class.Rd man/flowPlate-method.Rd man/fpbind-methods.Rd man/getGroups-methods.Rd man/gutterPlot-methods.Rd man/mfiPlot-methods.Rd man/on-methods.Rd man/panel.densityplot.flowPlate.Rd man/panel.xyplot.flowPlate.Rd man/pbmcPlate.Rd man/plateCore-package.Rd man/plateSet-methods.Rd man/plotPlate-methods.Rd man/prepanel.densityplot.flowPlate.Rd man/prepanel.xyplot.flowPlate.Rd man/setControlGates-methods.Rd man/summaryStats-methods.Rd man/wellAnnotation-methods.Rd man/xyplot-methods.Rd
paper
paper/EdResponse.doc
paper/ResponseToReviewers.doc
paper/ResponseToReviewers.pdf
paper/analysisSteps.odg
paper/analysisSteps.pdf
paper/bioconductorReview.txt
paper/fjVSr.emf
paper/fjVSr.pdf
paper/fjVSr.svg
paper/fjVSr2.svg
paper/fjVSr3.pdf
paper/fjVSrDf.csv
paper/isoplot.pdf
paper/isoplot.svg
paper/mfiRatio.pdf
paper/mfiRatio.svg
paper/mfiRatio2.pdf
paper/mfiRatio2.svg
paper/mfiRatioB.pdf
paper/outline.aux
paper/outline.bbl
paper/outline.bib
paper/outline.blg
paper/outline.tex
paper/outlineOLD.Rnw
paper/percentagesRandFJ.csv
paper/plateCore.doc
paper/plateCoreReviewer1.doc
paper/plateCoreReviewer2.doc
paper/rVSfjByFL.emf
paper/rVSfjByFL.pdf
paper/rVSfjByFL.svg
paper/replicate.emf
paper/replicate.pdf
paper/replicate.svg
vignettes
vignettes/expDens.pdf
vignettes/plateCoreVig.Rnw

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