SpatialDecon-package    SpatialDecon: A package for computating the
                        notorious bar statistic.
TIL_barplot             Barplot of abundance estimates
cellcols                Default colors for the cell types in the
                        safeTME matrix
collapseCellTypes       Collapse related cell types within a
                        deconvolution result
create_profile_matrix   Create Custom Cell Profile Matrix
derive_GeoMx_background
                        Derive background at the scale of the
                        normalized data for GeoMx data
download_profile_matrix
                        Download a cell profile matrix
florets                 Draw coxcomb plots as points in a graphics
                        window
mean.resid.sd           Genes' biological variability in immune
                        deconvolution from TCGA.
mergeTumorIntoX         Estimate a tumor-specific profile and merge it
                        with the pre-specified cell profile matrix (X)
mini_geomx_dataset      Small example GeoMx data
mini_singleCell_dataset
                        Mini human colon single cell dataset
nsclc                   Large example GeoMx data
reverseDecon            Reverse deconvolution
runCollapseCellTypes    Run collapseCellTypes
runCollapseCellTypes,NanoStringGeoMxSet-method
                        Collapse related cell types within a
                        deconvolution result
runErrorModel           Apply error model to estimate technical SD from
                        raw counts
runMergeTumorIntoX      Run MergeTumorIntoX
runMergeTumorIntoX,NanoStringGeoMxSet-method
                        Run mergeTumorIntoX on a NanostringGeomxSet
                        object
runReverseDecon         Run Reversedecon
runReverseDecon,NanoStringGeoMxSet-method
                        Run reversedecon on a NanostringGeomxSet object
runspatialdecon         Run spatialdecon
runspatialdecon,NanoStringGeoMxSet-method
                        Run spatialdecon on a NanostringGeomxSet object
runspatialdecon,Seurat-method
                        Run spatialdecon on a Seurat object
safeTME                 SafeTME matrix
safeTME.matches         Mapping from granularly-defined cell
                        populations to broaded cell populations
spatialdecon            Mixed cell deconvolution of spatiall-resolved
                        gene expression data
