Man pages for jkanche/TreeSE
R/Bioconductor package to interactively explore and visualize single cell RNA-seq datasets with hierarhical annotations
| ClusterHierarchy | Creates a new ClusterHierarchy object. |
| ClusterHierarchy-class | ClusterHierarchy class to manage treeviz cluster data |
| createFromSCE | Creates a 'TreeViz" object from 'SingleCellExperiment'.... |
| createFromSeurat | Creates a 'TreeViz' object from 'Seurat' |
| createTreeViz | Creates 'TreeViz' object from hierarchy and count matrix |
| dot-generate_hierarchy_tree | generate hierarchy tree |
| dot-generate_leaf_of_table | generate leaf of table |
| dot-generate_node_ids | generate node ids in the tree |
| dot-generate_nodes_table | generate nodes table tree |
| dot-replaceNAFeatures | replace if there are NA's in the hierarchy |
| EpivizTreeData-class | Data container for MRexperiment objects |
| set_gene_list | Sets gene list for visualization |
| startTreeviz | Start treeviz app and create 'TreeVizApp' object to manage... |
| TreeIndex | create a new TreeIndex object |
| TreeIndex-class | TreeIndex class to manage and query hierarchical data |
| TreeIndex-methods | Subset TreeIndex |
| TreeViz | The TreeViz class. |
| TreeVizApp-class | Class managing connection to metaviz application. |
| TreeViz-class | TreeViz class wrapper for SummarizedExperiment objects |
| TreeViz-methods | show object |
