get_most_variable_cyto {ChromSCape} | R Documentation

## Retrieve the cytobands with the most variable fraction of reads

### Description

Given a SingleCellExperiment object with the slot "cytoBand" containing the fraction of reads in each cytoband, calculates the variance of each cytoband and returns a data.frame with the top variables cytobands. Most cytobands are expected to be unchanged between normal and tumor samples, therefore focusing on the top variable cytobands enable to focus on the most interseting regions.

### Usage

    get_most_variable_cyto(scExp, top = 50)

### Arguments

`scExp` | A SingleCellExperiment with "cytoBand" reducedDim slot filled.
`top` | Number of cytobands to return (50).

### Value

A data.frame of the top variable cytoBands and their variance

### Examples

    data("scExp")
    scExp = calculate_cyto_mat(scExp, ref_genome="hg38")
    get_most_variable_cyto(scExp, top=50)

[Package ChromSCape version 1.2.62 Index]