Package index
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adjustA() - Adjusts alpha vector for contamination karyotypes
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bound() - bounds number to be in [0,1] (contamination estimation)
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callKaryotypes() - Take prior and observed counts and calls karyotypes and Z-scores
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ddirichletultinomial() - calculate Dirichlet probabilities with filtering
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dirichlet.mle_filter() - calculate Dirichlet parameters with filtering
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estimateGamma() - Estimate contamination from XX and XY based on observed counts
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example_data - example_data
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filterOutliers() - filter for outliers
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makeC() - make c vector for new karyotypes
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makeDirichlet() - function to make a Dirichlet prior
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makeZscores() - Calculates Z-scores per chromosome
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plot_diagnostic() - Plots diagnostic plots
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processReadCounts() - processReadCounts