callSignificance        Call associations as significant in each state.
getComplete             Filter QTLExperiment based on missing data
getSignificant          Filter to only QTLs significant in at least one
                        state
getTopHits              Filter QTLExperiment to keep only top hits
plotCompareStates       Compare QTL between two states
plotPairwiseSharing     Heatmap of pairwise QTL sharing with
                        state-level annotations
plotQTLClusters         Heatmap of QTL across states
plotSimulationParams    Distribution of estimated simulation parameters
plotUpSet               Upset plot of QTL sharing between states with
                        state-level annotations
qtleEstimate            Estimate parameters from real data for
                        simulating multi-state QTL summary statistics
qtleParams              Default qtle simulation parameters
qtleSimulate            Create simulated multistateQTL data for testing
                        purposes
replaceNAs              Return multistateQTL object with NAs filled in
runPairwiseSharing      Compute the proportion of (significant) QTL
                        shared by pairs of conditions
runSignificantFeatures
                        Function to summarize QTL summary statistics by
                        feature ID
runTestMetrics          Classify multi-state QTL
simPerformance          Performance metrics for multistateQTL
                        simulations
