calcChromBinsRef {GenomicDistributions} | R Documentation

## Returns the distribution of query over a reference assembly Given a query set of elements (a GRanges object) and a reference assembly (*e.g. 'hg38'), this will aggregate and count the distribution of the query elements across bins of the reference genome. This is a helper function to create features for common genomes. It is a wrapper of `calcChromBins`, which is more general.

### Description

Returns the distribution of query over a reference assembly Given a query set of elements (a GRanges object) and a reference assembly (*e.g. 'hg38'), this will aggregate and count the distribution of the query elements across bins of the reference genome. This is a helper function to create features for common genomes. It is a wrapper of `calcChromBins`, which is more general.

### Usage

    calcChromBinsRef(query, refAssembly, binCount = 10000)

### Arguments

`query` | A GenomicRanges or GenomicRangesList object with query regions
`refAssembly` | A character vector that will be used to grab chromosome sizes with `getChromSizes`
`binCount` | Number of bins to divide the chromosomes into

### Value

A data.table showing the distribution of regions across bins of the reference genome.

### Examples

    ChromBins = calcChromBinsRef(vistaEnhancers, "hg19")

[Package GenomicDistributions version 1.2.0 Index]