Comments (3)
We have a function in dynamo to plot kinetic heatmaps over pseudotime, basically you need to use something like the following:
dyn.ext.ddhodge(adata, basis='pca')
dyn.pl.kinetic_heatmap(adata, adata.var_names, mode='pseudotime', tkey='pca_ddhodge_potential', save_show_or_return='save',
save_kwargs={'prefix': './figures/Fig4_kinetic_heatmap', 'ext': 'pdf',
"bbox_inches": None},
figsize=(1, 1))
Note: you need to have vector field reconstructed before the above snippet.
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Hi, Dr Qiu,
I am also curious about the kinetic heatmap. how can we visualize the gene ID and the scale bar of intensity and cell identity with the argument in the dyn.pl.kinetic_heatmap
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this is documented in the kinetic_heatmap
function please run check via dyn.pl.kinetic_heatmap
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