savR-package	savR-package
buildReports	buildReports
buildReports,savProject,character-method	buildReports
buildReports,savProject,missing-method	buildReports
clusterQualityGtN	clusterQualityGtN
clusterQualityGtN,savProject,integer,integer,integer	clusterQualityGtN
clusterQualityGtN,savProject,integer,integer,integer-method	clusterQualityGtN
clusters	clusters
clusters,savProject,integer-method	clusters
correctedIntensities	correctedIntensities
correctedIntensities,savProject-method	correctedIntensities
cycles	cycles
cycles,savProject-method	cycles
directions	directions
directions,savProject-method	directions
errorMetrics	errorMetrics
errorMetrics,savProject-method	errorMetrics
extractionMetrics	extractionMetrics
extractionMetrics,savProject-method	extractionMetrics
flowcellLayout	flowcellLayout
flowcellLayout,savProject-method	flowcellLayout
illuminaFlowCellLayout-class	illuminaFlowCellLayout-class
illuminaRead-class	illuminaRead-class
location	location
location,savProject-method	location
pfBoxplot	pfBoxplot
pfBoxplot,savProject-method	pfBoxplot
pfClusters	pfClusters
pfClusters,savProject,integer	pfClusters
pfClusters,savProject,integer-method	pfClusters
plotFWHM	plotFWHM
plotFWHM,savProject,integer,character-method	plotFWHM
plotFWHM,savProject,integer,missing-method	plotFWHM
plotFWHM,savProject,missing,character-method	plotFWHM
plotFWHM,savProject,missing,missing-method	plotFWHM
plotIntensity	plotIntensity
plotIntensity,savProject,integer,character-method	plotIntensity
plotIntensity,savProject,integer,missing-method	plotIntensity
plotIntensity,savProject,missing,character-method	plotIntensity
plotIntensity,savProject,missing,missing-method	plotIntensity
plotQGT30	plotQGT30
plotQGT30,savProject,integer-method	plotQGT30
plotQGT30,savProject,missing-method	plotQGT30
qualityHeatmap	qualityHeatmap
qualityHeatmap,savProject,integer,integer,logical-method	qualityHeatmap
qualityHeatmap,savProject,numeric,numeric,missing-method	qualityHeatmap
qualityMetrics	qualityMetrics
qualityMetrics,savProject-method	qualityMetrics
reads	reads
reads,savProject-method	reads
run	run
run,savProject-method	run
savCorrectedIntensityFormat-class	savCorrectedIntensityFormat-class
savData-class	savData-class
savErrorFormat-class	savErrorFormat-class
savExtractionFormat-class	savExtractionFormat-class
savFormat-class	savFormat-class
savProject-class	savProject-class
savQualityFormat-class	savQualityFormat-class
savQualityFormatV5-class	savQualityFormatV5-class
savR	savR
savR,character-method	savR
savR,missing-method	savR
savTileFormat-class	savTileFormat-class
tileMetrics	tileMetrics
tileMetrics,savProject-method	tileMetrics
