subset_methrix: Subsets 'methrix' object based on given conditions.
In methrix: Fast and efficient summarization of generic bedGraph files from Bisufite sequencing

Subsets methrix object based on given conditions.

subset_methrix(
  m,
  regions = NULL,
  contigs = NULL,
  samples = NULL,
  overlap_type = "within"
)

`m`	`methrix` object
`regions`	genomic regions to subset by. Could be a data.table with 3 columns (chr, start, end) or a `GenomicRanges` object
`contigs`	chromosome names to subset by
`samples`	sample names to subset by
`overlap_type`	defines the type of the overlap of the CpG sites with the target region. Default value is 'within'. For detailed description, see the `foverlaps` function of the `data.table` package.

Takes methrix object and filters CpGs based on coverage statistics

An object of class methrix

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data('methrix_data')
#Subset to chromosome 1
subset_methrix(methrix_data, contigs = 'chr21')

methrix documentation built on Feb. 13, 2021, 2 a.m.

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