SegList-class {snapCGH} | R Documentation |
A list based class for storing the results of a segmentation algorithm.
They are generally created by running one of the following functions
runHomHMM
, runGLAD
or runDNAcopy
on an MAList object
.
Objects should contain the following list components:
pred : | Predicted value of the state. |
disp : | Dispersion. |
obs : | Observed value. |
state : | Numeric value. |
nstates.hmm : | The number of states per chromosome. Each row represents a chromosome and each column is an array. |
genes : | data.frame that contains the chromosome and position on the chromosome for each clone. Used for plotting functions. |
Optional:
rpred : | Smoothed value for the clone. |
prob : | Probability of the clone being in the assigned state. |
SegLists
can be subsetted and combined. They also return dimensions
so functions such as dim
, nrow
and ncol
are also defined. SegList
inherits the show
method from the Limma class LargeDataObject
. This
means that the SegList
will print in a relatively compact way.
Mike Smith