dimension_reduction-HierarchicalPartition-method: Visualize columns after dimension reduction

Description Usage Arguments Details Value Author(s) Examples

Description

Visualize columns after dimension reduction

Usage

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## S4 method for signature 'HierarchicalPartition'
dimension_reduction(object,
    depth = max_depth(object), parent_node,
    top_n = NULL, method = c("PCA", "MDS"),
    silhouette_cutoff = 0.5)

Arguments

object

a HierarchicalPartition-class object.

depth

depth of the hierarchy.

top_n

top n genes to use.

parent_node

parent node. If it is set, the function calls is identical to dimension_reduction(object[parent_node])

method

which method to reduce the dimension of the data. mds uses cmdscale, pca uses prcomp.

silhouette_cutoff

silhouette cutoff

Details

The classes is extract at depth depth.

Value

No value is returned.

Author(s)

Zuguang Gu <[email protected]>

Examples

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jokergoo/cola documentation built on Nov. 13, 2018, 1:22 p.m.