coverage_filter {methrix} | R Documentation |
Filter matrices by coverage
coverage_filter(m, cov_thr = 1, min_samples = 1, group = NULL)
m |
|
cov_thr |
minimum coverage required to call a loci covered |
min_samples |
At-least these many samples should have a loci with coverage >= |
group |
a column name from sample annotation that defines groups. In this case, the number of min_samples will be tested group-wise. |
Takes methrix
object and filters CpGs based on coverage statistics
An object of class methrix
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)