cluster_sites_to_region: cluster sites to region

In geneprophet/BSDMR: a region-based method for quantitating the conservation and divergence of methylation patterns between species by high order features

Description

cluster sites which meet the required suitations to region according to the annotation file

Usage

cluster_sites_to_region(
  methylation,
  annotation,
  min_sites_number = 10,
  max_distance_between_sites = 200,
  ignore_strand = TRUE,
  is_parallel = TRUE,
  no_cores = NULL
)

Arguments

methylation	GRanges object created by read_methylation_report.
annotation	GRanges object created by read_annotation.
min_sites_number	the minmal number of C sites in a region. the default is 10
max_distance_between_sites	the maxmal distance between C sites within a region. the unit of distance is unit and the default is 200
ignore_strand	Logical, whether or not to ignore strand information.
is_parallel	Logical, indicating if code should be run in parallel.
no_cores	if you have specify the is_parallel is ture ,you can specify the number of parallel cores

Value

A GRanges object.

Author(s)

Hongen Kang [e-mail]

See Also

read_methylation_report, read_annotation

Examples

## Not run: 
human_region <- cluster_sites_to_region(methylation = human_met,
                                        annotation = human_anno,is_parallel = TRUE)

## End(Not run)

geneprophet/BSDMR documentation built on March 3, 2021, 5:50 a.m.