The segClass class contains data about potential
segments on the genome.
Objects from the class
Objects can be created by calls of the form new("segClass", ...,
seglens). However, more usually they will be created by calling the
processAD function.
Slots
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.
Details
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
Methods 'new', 'dim', '[' and 'show' have been defined for this class.
Author(s)
Thomas J. Hardcastle
See Also
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.