TreeViz {scTreeViz}R Documentation

The TreeViz class.

Description

SummarizedExperiment-like class for datasets that have hierarchies on either rowData or colData. For microbiome data, rowData is a tree hierarchy For single cell data, colData is a tree hierarchy

Usage

TreeViz(assays = SimpleList(), rowData = NULL, colData = NULL, ...)

Arguments

assays

simple list of counts

rowData

rowData

colData

colData

...

other parameters for SummarizedExperiment

Value

a 'TreeViz' object

Examples

library(metagenomeSeq)
data(mouseData)
counts <- MRcounts(mouseData)
hierarchy <- fData(mouseData)
tree <- TreeIndex(hierarchy)
mbiome <- TreeViz(SimpleList(counts=counts), rowData=tree)

[Package scTreeViz version 0.99.11 Index]