Description Usage Arguments Value
Internal function to visualize aspects of transcriptional heterogeneity as a heatmap. Used by pagoda.view.aspects
.
1 2 3 4 |
mat |
Numeric matrix |
row.clustering |
Row dendrogram |
cell.clustering |
Column dendrogram |
zlim |
Range of the normalized gene expression levels, inputted as a list: c(lower_bound, upper_bound). Values outside this range will be Winsorized. Useful for increasing the contrast of the heatmap visualizations. Default, set to the 5th and 95th percentiles. |
row.cols |
Matrix of row colors. |
col.cols |
Matrix of column colors. Useful for visualizing cell annotations such as batch labels. |
cols |
Heatmap colors |
show.row.var.colors |
Boolean of whether to show row variance as a color track |
top |
Restrict output to the top n aspects of heterogeneity |
... |
additional arguments for heatmap plotting |
A heatmap
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