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Prunes the CN profile by pruning and merging through hierarchical clustering.
# S3 method for AbstractCBS
pruneByHClust(fit, ..., size=NULL, distMethod="euclidean", hclustMethod="ward.D",
merge=TRUE, update=TRUE, verbose=FALSE)
Returns a pruned object of the same class.
Arguments passed to cutree
,
particularly either of thresholds h
or k
.
Arguments (as well as
some of ...
) passed to *hclustCNs()
.
If TRUE
, consecutive segments that belong to the
same PSCN cluster will be merged into one large segment.
If TRUE
, segment means are updated afterwards, otherwise not.
See Verbose
.
Henrik Bengtsson
if (FALSE) {
fitP <- pruneByHClust(fit, h=0.25)
}
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