Quality Control of Gated Flow Cytometry Experiments


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Documentation for package ‘QUALIFIER’ version 1.6.21

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QUALIFIER-package QUALIFIER: A package that provides automated flow data quality assessment based on gated cell populations
clearCheck 'queryStats' method queries stats entries from db by qaTask object and formula
db The example QA data included in the package
description,qaTask a class for storing important information of flow cytometry data quality assessment task
formula,qaTask a class for storing important information of flow cytometry data quality assessment task
getData,qaTask a class for storing important information of flow cytometry data quality assessment task
getName,qaTask a class for storing important information of flow cytometry data quality assessment task
getPop,qaTask a class for storing important information of flow cytometry data quality assessment task
getQAStats Get statistics from gated data for QA check.
getQAStats-method Get statistics from gated data for QA check.
getQAStats-methods Get statistics from gated data for QA check.
highlight a class for storing important information of flow cytometry data quality assessment task
highlight-method a class for storing important information of flow cytometry data quality assessment task
highlight<- a class for storing important information of flow cytometry data quality assessment task
highlight<--method a class for storing important information of flow cytometry data quality assessment task
htmlReport a class for storing important information of flow cytometry data quality assessment task
htmlReport-method a class for storing important information of flow cytometry data quality assessment task
htmlReport<- a class for storing important information of flow cytometry data quality assessment task
htmlReport<--method a class for storing important information of flow cytometry data quality assessment task
initDB Initializes the data environment
ITNQASTUDY The example QA data included in the package
load_db save/load the data environment to/from disk
outlier.cutoff outliers detection functions
outlier.norm outliers detection functions
outlier.t outliers detection functions
outlierFunctions outliers detection functions
plot plot the statistics for a particular cell population of a group of samples
plot-method plot the statistics for a particular cell population of a group of samples
plot-methods plot the statistics for a particular cell population of a group of samples
plotType,qaTask a class for storing important information of flow cytometry data quality assessment task
proportion.outliers.mle outliers detection functions
proportion.outliers.robust outliers detection functions
qaCheck 'queryStats' method queries stats entries from db by qaTask object and formula
qaCheck-method 'queryStats' method queries stats entries from db by qaTask object and formula
qaCheck-methods 'queryStats' method queries stats entries from db by qaTask object and formula
qaCheckList The example QA data included in the package
qaID,qaTask a class for storing important information of flow cytometry data quality assessment task
qaLevel,qaTask a class for storing important information of flow cytometry data quality assessment task
qaPreprocess Preprocessing for QA check
qaReport create quality assessment report
qaReport-method create quality assessment report
qaReport-methods create quality assessment report
qaTask a class for storing important information of flow cytometry data quality assessment task
qaTask-class a class for storing important information of flow cytometry data quality assessment task
qoutlier outliers detection functions
qpar a class for storing important information of flow cytometry data quality assessment task
qpar-method a class for storing important information of flow cytometry data quality assessment task
qpar<- a class for storing important information of flow cytometry data quality assessment task
qpar<--method a class for storing important information of flow cytometry data quality assessment task
QUALIFIER QUALIFIER: A package that provides automated flow data quality assessment based on gated cell populations
queryStats 'queryStats' method queries stats entries from db by qaTask object and formula
queryStats-method 'queryStats' method queries stats entries from db by qaTask object and formula
read.qaTask Loading 'qaTask's from a csv file
rFunc a class for storing important information of flow cytometry data quality assessment task
rFunc-method a class for storing important information of flow cytometry data quality assessment task
rFunc<- a class for storing important information of flow cytometry data quality assessment task
rFunc<--method a class for storing important information of flow cytometry data quality assessment task
rlm outliers detection functions
saveToDB Save the gating set and annotation data into the data environment.
save_db save/load the data environment to/from disk
scatterPar a class for storing important information of flow cytometry data quality assessment task
scatterPar-method a class for storing important information of flow cytometry data quality assessment task
scatterPar<- a class for storing important information of flow cytometry data quality assessment task
scatterPar<--method a class for storing important information of flow cytometry data quality assessment task
show,qaTask a class for storing important information of flow cytometry data quality assessment task
tubesevents The example QA data included in the package