get_signatures-HierarchicalPartition-method: Get signatures rows

In cola: A Framework for Consensus Partitioning

Description

Get signatures rows

Usage

## S4 method for signature 'HierarchicalPartition'
get_signatures(object, depth = max_depth(object),
    scale_rows = object[1]@scale_rows,
    anno = get_anno(object),
    anno_col = get_anno_col(object),
    show_column_names = FALSE,
    verbose = TRUE, plot = TRUE,
    ...)

Arguments

object	a HierarchicalPartition-class object.
depth	depth of the hierarchy.
scale_rows	whether apply row scaling when making the heatmap.
anno	a data frame of annotations for the original matrix columns. By default it uses the annotations specified in hierarchical_partition.
anno_col	a list of colors (color is defined as a named vector) for the annotations. If anno is a data frame, anno_col should be a named list where names correspond to the column names in anno.
show_column_names	whether show column names in the heatmap.
verbose	whether to print messages.
plot	whether to make the plot.
...	other arguments pass to get_signatures,ConsensusPartition-method.

Details

The function calls get_signatures,ConsensusPartition-method to find signatures at each node of the partition hierarchy.

Value

A list of row indices where rows are significantly different between subgroups in at least one node.

Author(s)

Zuguang Gu <[e-mail]>

Examples

# There is no example
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cola documentation built on Nov. 8, 2020, 8:12 p.m.