R/main.R
plot_pseudotime_dynamics.RdVisualize the smoothed gene expression dynamics along specific branches of the pseudotime tree.
| gene_list | character vector. The names of the genes to render. |
|---|---|
| leaf_ids | integer vector. Specifies the indices of the differentiation trajectories to visualize. If NULL (default), all the trajectories are rendered. |
| title | character string. The title of the plot. Default to the rendered gene names. |
| subtitle | character string. The subtitle of the plot. Default to NULL. |
| data_status | character string. Specifies whether the gene expression levels to be rendered are raw ("Raw"), normalized ("Normalized") or have been imputed ("Smoothed"). Default to "Smoothed". |
| show_cells | logical. Whether to show the gene expression levels for each individual cells. Default to FALSE. |
| basename | character string. The name of the output file, without extension. |