Deconvolution of mixed cells from spatial and/or bulk gene expression data

Documentation for package ‘SpatialDecon’ version 1.0.0

SpatialDecon-package	SpatialDecon: A package for computating the notorious bar statistic.
cellcols	Default colors for the cell types in the safeTME matrix
collapseCellTypes	Collapse related cell types within a deconvolution result
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	Example GeoMx data
reverseDecon	Reverse deconvolution
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
tidy_X_and_Y	Function to format Y, X inputs for decon
TIL_barplot	Barplot of abundance estimates