/usr/lib/R/site-library/savR/help/AnIndex is in r-bioc-savr 1.16.0-1.
This file is owned by root:root, with mode 0o644.
The actual contents of the file can be viewed below.
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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
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