Usage
doHeatMap(object, cells.use = NULL, genes.use = NULL, disp.min = -2.5, disp.max = 2.5, draw.line = TRUE, do.return = FALSE, order.by.ident = TRUE, col.use = pyCols, slim.col.label = FALSE, group.by = NULL, remove.key = FALSE, ...)
Arguments
cells.use
Cells to include in the heatmap (default is all cells)
genes.use
Genes to include in the heatmap (ordered)
disp.min
Minimum display value (all values below are clipped)
disp.max
Maximum display value (all values above are clipped)
draw.line
Draw vertical lines delineating cells in different identity
classes.
do.return
Default is FALSE. If TRUE, return a matrix of scaled values
which would be passed to heatmap.2
order.by.ident
Order cells in the heatmap by identity class (default
is TRUE). If FALSE, cells are ordered based on their order in cells.use
col.use
Color palette to use
slim.col.label
if (order.by.ident==TRUE) then instead of displaying
every cell name on the heatmap, display only the identity class name once
for each group
group.by
If (order.by.ident==TRUE) default, you can group cells in
different ways (for example, orig.ident)
remove.key
Removes the color key from the plot.
...
Additional parameters to heatmap.2. Common examples are cexRow
and cexCol, which set row and column text sizes