Selection of ranges and columns
A BigBedSelection represents a query against a
BigBed file, see import.bb. It is simply
a RangedSelection with colnames
parameter.colnames should be a character vector of column names.
Default columns are "name", "score", "thick", "itemRgb"
and "blocks", if non-empty, as that is the only column supported
by BigBed.
BigBedSelection(ranges = GRanges(), colnames =
"score"): Constructs a BigBedSelection with the given
ranges and colnames.
a character identifying a genome (see
GenomicSelection), or a
BigBedFile, in which case the ranges are
derived from the bounds of its sequences.
as(from, "BigBedSelection"): Coerces from to a
BigBedSelection object. Typically, from is a
GRanges or
a IntegerRangesList, the ranges of
which become the ranges in the
new BigBedSelection.
Michael Lawrence
rl <- IRangesList(chr1 = IRanges::IRanges(c(1, 5), c(3, 6))) BigBedSelection(rl) as(rl, "BigBedSelection") # same as above # do not select any column BigBedSelection(rl, character())
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