classify_genome: classify the genome based on bed coordinates

In jtlovell/gscTools: Genome exploration R tools

classify the genome based on bed coordinates

Description

classify_genome Hierarchically classify the genome by coordinates in the list of bed files. Sequences in the first bed file are masked in the second and so on.

Usage

classify_genome(seqInfo, listOfBeds, verbose)

Arguments

seqInfo	seqinfo extracted from the genome assembly DNAstringset
listOfBeds	list of bed-like data.frames/data.tables with at least the columns chr, start and end.
verbose	logical, should updates be printed to the console?

Details

intersects, gaps and reduces overlapping intervals

Value

a list of granges matchin the listOfBeds

Examples

## Not run: 
# coming soon.

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jtlovell/gscTools documentation built on March 16, 2023, 10:24 p.m.