AddTsne                 Add tSNE to your results.
FcsToTibble             Takes a file as input and returns a data frame
                        of cells by features
Fnn                     Compute knn using the fnn algorithm
GetKnnDe                Get the KNN density estimaion
GetMarkerNames          Takes in an example file as input and returns
                        all marker names
Impute                  Imputes values for all markers (used as input)
                        for each cell
ImputeTesting           Impute testing
LogTransformQ           Log transform the q values
MakeHist                make.hist
MakeKnnList             Make list of cells by features for each KNN
                        member
MeaningOfLife           Meaning of life
MultipleDonorStatistics
                        Runs a t test on the medians or means of
                        multiple donors for the same condition
ParseMarkers            Parse markers contained in a Sconify-directed
                        marker file
PostProcessing          Post-processing for scone analysks.
ProcessMultipleFiles    Converts multiple files into a concatenated
                        data frame
QCorrectionThresholding
                        Corrects all p values for multiple hypotheses,
                        sets threshold for which change values should
                        be reported
QuantNormalize          Performs quantile normalization on the data
                        frame (patient) of interest
QuantNormalizeElements
                        Takes a list of tibbles as input, and performs
                        per-column quantile normalization, then outputs
                        the quantile normalized list
RunStatistics           Performs a series of statistical tests on the
                        batch of cells of interest.
SconeValues             Master function for per-knn statistics
                        functionality, integrating the other
                        non-exported functions within this script.
SplitFile               Runs "process.multiple.files" on a single file,
                        splits it randomly, and presends half of it is
                        "unstim" and half of it is "stim"
StringToNumbers         Transform strings to numbers.
SubsampleAndTsne        Subsample data and run tSNE
TsneVis                 Plot a tSNE map colored by a marker of interest
bz.gmcsf.final          Bodenmiller-Zunder GM-CSF post-SCONE final data
bz.gmcsf.final.norm.scale
                        Bodenmiller-Zunder GM-CSF post-SCONE final
                        data, that's been quantile normalized and z
                        scored.
exist                   Random musing
funct.markers           Functional markers from the Wanderlust dataset.
input.markers           Input markers for the Wanderlust dataset
markers                 Markers for the Wanderlust dataset
wand.combined           Wanderlust data combined basal and IL7 cells
wand.final              Post-scone output of the "combiend" Wanderlust
                        data.
wand.ideal.k            A named vector to help the user determine the
                        ideal k for the Wanderlust dataset.
wand.il7                Wanderlust IL7 data
wand.scone              Wanderlust scone output
