XStringSetList objects

Description

The XStringSetList class is a virtual container for storing a list of XStringSet objects.

Details

Concrete flavors of the XStringSetList container are the BStringSetList, DNAStringSetList, RNAStringSetList and AAStringSetList containers for storing a list of BStringSet, DNAStringSet, RNAStringSet and AAStringSet objects, respectively. These four containers are direct subclasses of XStringSetList with no additional slots.

Methods

[TODO]

Author(s)

H. Pages

See Also

XStringSet-class, Grouping-class, Vector-class

Examples

  unlisted <- DNAStringSet(c("AAA", "AC", "GGATA"))
  partitioning <- PartitioningByEnd(c(0, 2, 2, 3))
  x <- new("DNAStringSetList",
           unlisted=unlisted,
           partitioning=partitioning)
  x
  length(x)
  unlist(x)
  x[[1]]
  x[[2]]
  as.list(x)

  names(x) <- LETTERS[1:4]
  x[["A"]]
  x[["B"]]
  as.list(x)  # named list

  ## Using the Grouping core API on 'partitioning(x)':
  partitioning(x)
  length(partitioning(x))
  nobj(partitioning(x))
  grouplength(partitioning(x))  # same as 'unname(sapply(x, length))'

  ## Using the Ranges core API on 'partitioning(x)':
  start(partitioning(x))
  end(partitioning(x))
  width(partitioning(x))  # same as 'grouplength(partitioning(x))'