QUALIFIER: Quality Control of Gated Flow Cytometry Experiments

Provides quality control and quality assessment tools for gated flow cytometry data.

Install the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("QUALIFIER")
AuthorMike Jiang,Greg Finak,Raphael Gottardo
Bioconductor views CellBasedAssays FlowCytometry Infrastructure
Date of publicationNone
MaintainerMike Jiang <wjiang2@fhcrc.org>
LicenseArtistic-2.0
Version1.20.0

View on Bioconductor

Functions

clearCheck Man page
db Man page
description,qaTask Man page
formula,qaTask Man page
getData,qaTask Man page
getName,qaTask Man page
getPop,qaTask Man page
getQAStats Man page
getQAStats,environment-method Man page
getQAStats,GatingHierarchy-method Man page
getQAStats,GatingSetList-method Man page
getQAStats,GatingSet-method Man page
getQAStats-methods Man page
highlight Man page
highlight<- Man page
highlight<-,qaTask,character-method Man page
highlight,qaTask-method Man page
htmlReport Man page
htmlReport<- Man page
htmlReport<-,qaTask,logical-method Man page
htmlReport,qaTask-method Man page
initDB Man page
ITNQASTUDY Man page
load_db Man page
outlier.cutoff Man page
outlierFunctions Man page
outlier.norm Man page
outlier.t Man page
plot Man page
plot-methods Man page
plot,qaTask,ANY-method Man page
plot,qaTask-method Man page
plotType,qaTask Man page
proportion.outliers.mle Man page
proportion.outliers.robust Man page
qaCheck Man page
qaCheckList Man page
qaCheck-methods Man page
qaCheck,qaTask-method Man page
qaID,qaTask Man page
qaLevel,qaTask Man page
qaPreprocess Man page
qaReport Man page
qaReport,list-method Man page
qaReport-methods Man page
qaReport,qaTask-method Man page
qaTask Man page
qaTask-class Man page
qoutlier Man page
qpar Man page
qpar<- Man page
qpar<-,qaTask,list-method Man page
qpar,qaTask-method Man page
QUALIFIER Man page
QUALIFIER-package Man page
queryStats Man page
queryStats,qaTask-method Man page
read.qaTask Man page
rFunc Man page
rFunc<- Man page
rFunc<-,qaTask,ANY-method Man page
rFunc<-,qaTask-method Man page
rFunc,qaTask-method Man page
rlm Man page
save_db Man page
saveToDB Man page
scatterPar Man page
scatterPar<- Man page
scatterPar<-,qaTask,list-method Man page
scatterPar,qaTask-method Man page
show,qaTask Man page
tubesevents Man page

Files

DESCRIPTION
NAMESPACE
QUALIFIER_files
QUALIFIER_files/figure-html
QUALIFIER_files/figure-html/plot-BoundaryEvents-1.png
QUALIFIER_files/figure-html/plot-MNC-1.png
QUALIFIER_files/figure-html/plot-NumberOfEvents-1.png
QUALIFIER_files/figure-html/plot-RBCLysis-1.png
QUALIFIER_files/figure-html/plot-RBCLysis-subset-1.png
QUALIFIER_files/figure-html/plot-RedundantStain-1.png
QUALIFIER_files/figure-html/plot-spike-1.png
QUALIFIER_files/figure-html/qaCheck-MFIOverTime-1.png
R
R/AllClasses.R R/AllFunctions.R R/AllGenerics.R R/addStats.R R/data.R R/getQAStats.R R/outlier.R R/qaCheck.R R/qaPanelFunction.R R/qaPlot.R R/qaReport.R R/qaTask-accessor-Methods.R R/trellisPlot.R R/utils.R
README.md
data
data/ITNQASTUDY.rda
data/qaCheckList.csv.gz
data/tubesevents.csv.gz
examples
examples/ITN.R examples/Rd2roxygen.R examples/example.R examples/example2.R examples/report-gen.R
inst
inst/NEWS
inst/doc
inst/htmlTemplates
inst/htmlTemplates/qaReport.css
inst/htmlTemplates/qaReport.js
inst/javascript
inst/javascript/highlight.js
inst/javascript/highlightBoxplot.js
inst/javascript/highlightFCS.js
man
man/ITNQASTUDY.Rd man/QUALIFIER-package.Rd man/getQAStats.Rd man/initDB.Rd man/outlierFunctions.Rd man/plot-methods.Rd man/qaCheck-methods.Rd man/qaPreprocess.Rd man/qaReport.Rd man/qaTask-class.Rd man/read.qaTask.Rd man/saveToDB.Rd man/save_db.Rd
vignettes
vignettes/QUALIFIER-plot-MNC-scatter.png
vignettes/QUALIFIER-plot-subset2.png
vignettes/QUALIFIER.Rmd

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

Please suggest features or report bugs with the GitHub issue tracker.

All documentation is copyright its authors; we didn't write any of that.