aggregate_nearby_peaks {cicero} | R Documentation

## Make an aggregate count cds by collapsing nearby peaks

### Description

Make an aggregate count cds by collapsing nearby peaks

### Usage

    aggregate_nearby_peaks(cds, distance = 1000)

### Arguments

`cds` | A CellDataSet (CDS) object. For example, output of `make_atac_cds`
`distance` | The distance within which peaks should be collapsed

### Details

This function takes an input CDS object and collapses features within a given distance by summing the values for the collapsed features. Ranges of features are determined by their feature name, so the feature names must be in the form "chr1:1039013-2309023".

### Value

A CDS object with aggregated peaks.

### Examples

      data("cicero_data")
      input_cds <- make_atac_cds(cicero_data, binarize = TRUE)
      agg_cds <- aggregate_nearby_peaks(input_cds, distance = 10000)

[Package cicero version 1.4.4 Index]