biobroom (version 1.4.2)

tidy.GRanges: Tidying methods for GRanges and GRangesList objects.

Description

Tidying methods for GRanges and GRangesList objects.

Usage

"tidy"(x, ...)
"tidy"(x, ...)
"glance"(x, ...)
"glance"(x, ...)

Arguments

x

GRanges or GRangesList object

...

Not used.

Value

All tidying methods return a data.frame without rownames. tidy returns one row for each range, which contains

• start of the range
• end of the range
• width (or length) of the range
• names of the range
• strand
• seqname Name of the sequence from which the range comes (usually the chromosome)
• metadata Any included metadata, (ie, score, GC content)

For GRangesList, there will also be a column representing which group the ranges comes from. glance returns a data.frame with the number of ranges, the number of sequences, and the number of groups (if applicable).

Examples

if (require("GenomicRanges", "airway")) {
data(airway)

# GRangesList object
air_gr <- rowRanges(airway)

tidy(air_gr)
glance(air_gr)

# GRanges object
air_gr <- rowRanges(airway)@unlistData

tidy(air_gr)
glance(air_gr)


}