coverage_filter {methrix} | R Documentation

## Filter matrices by coverage

### Description

Filter matrices by coverage

### Usage

    coverage_filter(m, cov_thr = 1, min_samples = 1, group = NULL)

### Arguments

`m` | `methrix` object
`cov_thr` | minimum coverage required to call a loci covered
`min_samples` | At-least these many samples should have a loci with coverage >= `cov_thr`
`group` | a column name from sample annotation that defines groups. In this case, the number of min_samples will be tested group-wise.

### Details

Takes `methrix` object and filters CpGs based on coverage statistics

### Value

An object of class `methrix`

### Examples

    data('methrix_data')
    #keep only CpGs which are covered by at-least 1 read across 3 samples
    coverage_filter(m = methrix_data, cov_thr = 1, min_samples = 3)

[Package methrix version 1.0.05 Index]