TIL_barplot {SpatialDecon} | R Documentation |
Draw barplot of the "betas" from a decon fit
TIL_barplot(mat, draw_legend = FALSE, main = "", col = NULL, ...)
mat |
Matrix of cell proportions or abundances, in the same dimensions output by spatialdecon (cells in rows, observations in columns). User is free to re-order columns/observations in whatever order is best for display. |
draw_legend |
Logical. If TRUE, the function draws a legend in a new plot frame. |
main |
Title for barplot |
col |
Vector of colors for cell types. Defaults to pre-set colors for the safeTME cell types. |
... |
Arguments passed to barplot() |
Draws a barplot.
data(mini_geomx_dataset) data(safeTME) # estimate background: mini_geomx_dataset$bg <- derive_GeoMx_background( norm = mini_geomx_dataset$normalized, probepool = rep(1, nrow(mini_geomx_dataset$normalized)), negnames = "NegProbe" ) # run basic decon: res0 <- spatialdecon( norm = mini_geomx_dataset$normalized, bg = mini_geomx_dataset$bg, X = safeTME ) # run barplot: TIL_barplot(mat = res0$beta) # run barplot and draw a color legend TIL_barplot(mat = res0$beta, draw_legend = TRUE)