regionAggregation-DsNOMe-method: regionAggregation-methods
In GreenleafLab/ChrAccR: Analyzing chromatin accessibility data in R

regionAggregation,DsNOMe-method

R Documentation

regionAggregation-methods

Description

Aggregate methylation levels and coverage values accross a set of regions

Usage

## S4 method for signature 'DsNOMe'
regionAggregation(
  .object,
  regGr,
  type,
  methAggrFun = "weightedMean",
  dropEmpty = TRUE
)

Arguments

`.object`	`DsNOMe` object
`regGr`	`GRanges` object containing regions to summarize
`type`	character string specifying a name for the region type
`methAggrFun`	aggregation function for methylation levels. Currently `mean`, `median` and `weightedMean` (default) are supported.
`dropEmpty`	discard all regions with no observed methylation levels

Details

Coverage values are aggregated by summing up coverage values for individual GCs while the aggregation function for methylation levels is specified by the methAggrFun parameter.