Plot the traj as a heatmap
plot_heatmap(traj, expression_source = "expression", features_oi = 20, clust = "ward.D2", margin = 0.02, color_cells = NULL, milestones = NULL, milestone_percentages = traj$milestone_percentages, grouping = NULL, groups = NULL, cell_feature_importances = NULL, heatmap_type = c("tiled", "dotted"), scale = dynutils::scale_quantile, label_milestones = TRUE)
| traj | The trajectory |
|---|---|
| expression_source | Source of the feature expression, defaults to `expression` |
| features_oi | The features of interest, either the number of features or a vector giving the names of the different features |
| clust | The method to cluster the features, or a hclust object |
| margin | The margin to add |
| color_cells | How to color the cells |
| milestones | Tibble containing the `milestone_id` and a `color` for each milestone |
| milestone_percentages | The milestone percentages |
| grouping | The grouping of the cells |
| groups | Tibble containing information of the cell groups |
| cell_feature_importances | The importances of every feature in every cell, as returned by [dynfeature::calculate_cell_feature_importance()] |
| heatmap_type | The type of heatmap, either tiled or dotted |
| scale | Whether to rescale the expression, can be a function or boolean |
| label_milestones | How to label the milestones. Can be TRUE (in which case the labels within the trajectory will be used), "all" (in which case both given labels and milestone_ids will be used), a named character vector, or FALSE |