aggregateCHRPlot        Visualization of data output from the tLOHCalc
                        function, aggregated per chromosome
alleleFrequencyPlot     Visualization of data output from the tLOHCalc
                        function
documentErrorRegions    Identification of Errors
hiddenMarkovAnalysis    Run Multi-Step HMM Analysis on tLOHCalcUpdate
                        output
humanGBMsampleAC        Imported dataset of a human glioblastoma
                        spatial transcriptomics sample processed with
                        tLOHImportData.
initialStartProbabilities
                        Imported dataset of sample start probabilities
                        for hiddenMarkovAnalysis
marginalLikelihoodM1    Marginal M1 Calculation
marginalLikelihoodM2    Marginal M2 Calculation
marginalM1Calc          Calculate marginal of Model 1
marginalM2CalcBHET      Calculation of marginal M2 het
marginalM2CalcBLOH      Marginal M2 Calculation
modePeakCalc            Calculation of mode peak
prepareHMMdataframes    Prepare dataframes for HMM analysis
regionAnalysis          Summary of HMM Regions
regionFinalize          Summary of HMM Regions
removeOutlierFromCalc   Removes outliers
runHMM_1                Step 1 of HMM process
runHMM_2                Step 2 of HMM process
runHMM_3                Step 3 of HMM process
splitByChromosome       Split dataframe into individual chromosome
                        dataframes
summarizeRegions1       Step 1 of region summary
summarizeRegions2       Step 2 of region summary
tLOHCalc                Assement of evidence for LOH in clusters from
                        spatial transcriptomics data
tLOHCalcUpdate          Assement of evidence for LOH in clusters from
                        spatial transcriptomics allele count data
tLOHDataImport          Import VCF for tLOHCalc
