segClass-class {segmentSeq} | R Documentation |
The segClass
class contains data about potential
segments on the genome.
Objects can be created by calls of the form new("segClass", ...,
seglens)
. However, more usually they will be created by calling the
processAD
function.
coordinates
:A GRanges
object defining the coordinates of the segments.
replicates
:Object of class "factor"
. The
replicate structure for the samples.
locLikelihoods
:Object of class "DataFrame"
describing estimated likelihoods that each region defined in
‘coordinates’ is a locus in each replicate group.
The @coordinates
slot contains information on each of the potential
segments; specifically, chromosome, start and end of the segment,
together. Each row of the @coordinates
slot should correspond to
the same row of the @data
slot.
In almost all cases objects of this class should be produced by the
processAD
function.
Methods 'new', 'dim', '[' and 'show' have been defined for this class.
Thomas J. Hardcastle
processAD
, the function that will most often be used to
create objects of this class.
segData
, which inherits from this class.
segMeth
, which inherits from this class.