plot_coexpression_matrix {monocle} | R Documentation |
Not sure we're ready to release this one quite yet: Plot the branch genes in pseduotime with separate branch curves
plot_coexpression_matrix(cds, rowgenes, colgenes, relative_expr = TRUE, min_expr = NULL, cell_size = 0.85, label_by_short_name = TRUE, show_density = TRUE, round_expr = FALSE)
cds |
CellDataSet for the experiment |
rowgenes |
Gene ids or short names to be arrayed on the vertical axis. |
colgenes |
Gene ids or short names to be arrayed on the horizontal axis |
relative_expr |
Whether to transform expression into relative values |
min_expr |
The minimum level of expression to show in the plot |
cell_size |
A number how large the cells should be in the plot |
label_by_short_name |
a boolean that indicates whether cells should be labeled by their short name |
show_density |
a boolean that indicates whether a 2D density estimation should be shown in the plot |
round_expr |
a boolean that indicates whether cds_expr values should be rounded or not |
a ggplot2 plot object