hclust_haystack_raw {singleCellHaystack}

Function for hierarchical clustering of genes according to their distribution on a 2D plot.

Description

Function for hierarchical clustering of genes according to their distribution on a 2D plot.

Usage

hclust_haystack_raw(x, y, detection, genes, method = "ward.D")

Arguments

x

x-axis coordinates of cells in a 2D representation (e.g. resulting from PCA or t-SNE)

y

y-axis coordinates of cells in a 2D representation

detection

A logical matrix showing which genes (rows) are detected in which cells (columns)

genes

A set of genes (of the 'detection' data) which will be clustered.

method

The method to use for hierarchical clustering. See '?hclust' for more information. Default: "ward.D".

Value

An object of class hclust, describing a hierarchical clustering tree.