Experimental version of t-SNE heatmaps codes
1 2 |
markers |
markers of interest |
tsne_embedding |
1D t-SNE embedding |
cell_labels |
Labels for each cell. Typically these are the cluster assignments for each cell, as obtained by dbscan on the 2D t-SNE. This way, the columns of the heatmap will have a color assigned to each of them, and they can be mapped to a corresponding location on the 2D t-SNE |
breaks |
Number of bins |
plot |
Logical. Whether to plot the heatmap (TRUE). If false, a list containing a matrix of the heatmap data and the column annotations (group_label) will be returned. Default is TRUE |
expression_matrix |
FACS data. Columns should be markers, rows are cells. |
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