reduceGenomeFilters: Create a reduced set of germline and sequence filters

In cancer-genomics/trellis: Somatic structural variant analysis

Create a reduced set of germline and sequence filters

Description

Create a reduced set of germline and sequence filters

Usage

reduceGenomeFilters(filters, seqlev)

Arguments

filters	a list of germline CNV filters as GRanges objects
seqlev	character vector of sequence names

Details

The reduced set is restricted to the sequence names provided in seqlev (if provided).

Value

a reduced GRanges object of germline and sequence filters

See Also

listGenomeFilters

See inter-range-methods for a description of reduce.

Examples

library(svfilters.hg19)
filter.list <- listGenomeFilters("hg19")
filter.list <- filter.list[names(filter.list) != "transcripts"]
filters <- reduceGenomeFilters(filter.list)

cancer-genomics/trellis documentation built on Feb. 2, 2023, 7:04 p.m.