List of IRanges

Description

A RangesList that only stores IRanges objects.

Constructor

IRangesList(..., universe = NULL, compress = TRUE): The ... argument accepts either a comma-separated list of IRanges objects, or a single LogicalList / logical RleList object, or 2 elements named start and end each of them being either a list of integer vectors or an IntegerList object. When IRanges objects are supplied, each of them becomes an element in the new IRangesList, in the same order, which is analogous to the list constructor. If compress, the internal storage of the data is compressed.

Coercion

as(from, "NormalIRanges"): Merges each of the elements into a single NormalIRanges through reduce.

unlist(x): Unlists x, an IRangesList, by concatenating all of the ranges into a single IRanges instance. If the length of x is zero, an empty IRanges is returned.

Author(s)

Michael Lawrence

See Also

RangesList, the parent of this class, for more functionality.

Examples

  range1 <- IRanges(start=c(1,2,3), end=c(5,2,8))
  range2 <- IRanges(start=c(15,45,20,1), end=c(15,100,80,5))
  named <- IRangesList(one = range1, two = range2)
  length(named) # 2
  names(named) # "one" and "two"
  named[[1]] # range1
  unnamed <- IRangesList(range1, range2)
  names(unnamed) # NULL

  x <- IRangesList(start=list(c(1,2,3), c(15,45,20,1)),
                   end=list(c(5,2,8), c(15,100,80,5)))
  as.list(x)