R/Bioconductor package to interactively explore and visualize single cell RNA-seq datasets with hierarhical annotations

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Documentation for package ‘scTreeViz’ version 1.15.0

• DESCRIPTION file.
• User guides, package vignettes and other documentation.

Help Pages

.generate_hierarchy_tree	generate hierarchy tree
.generate_leaf_of_table	generate leaf of table
.generate_nodes_table	generate nodes table tree
.generate_node_ids	generate node ids in the tree
.replaceNAFeatures	replace if there are NA's in the hierarchy
aggregateTree	show object
aggregateTree-method	show object
ClusterHierarchy	Creates a new ClusterHierarchy object.
ClusterHierarchy-class	ClusterHierarchy class to manage treeviz cluster data
createFromSCE	Creates a 'TreeViz" object from 'SingleCellExperiment'. Generates clusters based on Walktrap algorithm if no default is provided
createFromSeurat	Creates a 'TreeViz' object from 'Seurat'
createTreeViz	Creates 'TreeViz' object from hierarchy and count matrix
EpivizTreeData	Data container for MRexperiment objects
EpivizTreeData-class	Data container for MRexperiment objects
getNodes	Subset TreeIndex
getNodes-method	Subset TreeIndex
getNodeStates	Subset TreeIndex
getNodeStates-method	Subset TreeIndex
plot-method	show object
register-method	show object
set_gene_list	Sets gene list for visualization
show-method	Subset TreeIndex
show-method	show object
splitAt	Subset TreeIndex
splitAt-method	Subset TreeIndex
startTreeviz	Start treeviz app and create 'TreeVizApp' object to manage connection.
TreeIndex	create a new TreeIndex object
TreeIndex-class	TreeIndex class to manage and query hierarchical data
TreeViz	The TreeViz class.
TreeViz-class	TreeViz class wrapper for SummarizedExperiment objects
TreeVizApp	Class managing connection to metaviz application.
TreeVizApp-class	Class managing connection to metaviz application.
[-method	Subset TreeIndex