CancerPanel-class       Class 'CancerPanel'
PrecisionTrialDrawer-package
                        PrecisionTrialDrawer: a package to analyze and
                        design custom cancer panels
appendRepo              appendRepo: Add extra population data
coocMutexPlot           Plot cooccurence and mutual exclusivity between
                        pairs of drugs or genes
coveragePlot            A series of bar charts representing the number
                        of samples harbouring at least one or more
                        alterations
coverageStackPlot       A stacked and beside bar chart representing a
                        breakdown of covered samples
cpArguments             Method that returns the 'arguments' slot in a
                        'CancerPanel' object.
cpData                  Method that returns the 'dataFull' slot in a
                        'CancerPanel' object.
cpDataSubset            Method that returns the 'dataSubset' slot in a
                        'CancerPanel' object.
cpDesign                Example of a cancer panel design export
cpFreq                  Calculate frequencies of mutations, copynumber,
                        fusion or expression on a CancerPanel object
cpObj                   Example of a cancer panel
cpObj2                  Example of a cancer panel
dataExtractor           dataExtractor: extract data from a CancerPanel
                        object
filterFusions           filterFusions: remove or keep specified fusions
filterMutations         filterMutations: remove or keep specified
                        mutations
getAlterations          Retrieve genomic data for each gene in the
                        panel
newCancerPanel          CancerPanel object constructor
panelDesigner           Estimate panel design according to user
                        specifications
panelOptimizer          A function that open a shiny app to optimize
                        panel size while retaining the majority of
                        mutations
panelexample            Example of a cancer panel
propPowerSampleSize     Calculate sample size or power required in a
                        2-sample or 1-sample proportion equality study
saturationPlot          Plot your panel along with incremental genomic
                        space occupied adding one piece at a time
showCancerStudy         List of cancer studies included in the
                        cBioportal
showTumorType           List of tumor type barcode
subsetAlterations       Retrieve exactly the the alteration requested
                        in the panel after a getAlterations method
survPowerSampleSize     Calculate sample size or power required in a
                        2-sample time-to-event (survival) study
survPowerSampleSize1Arm
                        Calculate sample size or power required in a
                        1-sample time-to-event (survival) study
