classify | Classify cells on previously defined rules |
class_to_deseq2 | Create DESeq2 object for a given cell type |
evaluate_rule | Evaluate rule to obtain positive / negative cells |
feat | Feature plots: Color gene expression in 2D embeddings |
find_knn | Find approximate k-nearest neighbors |
is_classes | Check if obj$classes looks as expected. is_class returns... |
is_rules | Check if obj$rules looks as expected. |
knn_refine | Refine cell type labels with knn classifier |
plot_classes | Call and visualize 'classify' function |
plot_last | Plot the last modified rule or class |
pool_across_neighbors | Sum up x across neighbors in a nearest neighbor graph. |
pseudobulk | Form pseudobulks from single cells. |
pseudobulk_id | Generate unique IDs to identify your pseudobulks. |
pype_code_template | Generate code template for cellpype rules |
pype_from_seurat | Convert Seurat to cellpypes object. |
rule | Add a cell type rule. |
simulated_umis | Simulated scRNAseq data |
tree_ancestry | Find parent, parent's parent and so on for a class using... |
tree_descendants | Find child, child's child and so on for class(es) using... |
tree_leaf_nodes | Finds leaf nodes, i.e. classes without children |
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.