pruneByHClust.AbstractCBS: Prunes the CN profile by pruning and merging through...

In PSCBS: Analysis of Parent-Specific DNA Copy Numbers

Prunes the CN profile by pruning and merging through hierarchical clustering

Description

Prunes the CN profile by pruning and merging through hierarchical clustering.

Usage

## S3 method for class 'AbstractCBS'
pruneByHClust(fit, ..., size=NULL, distMethod="euclidean", hclustMethod="ward.D",
  merge=TRUE, update=TRUE, verbose=FALSE)

Arguments

...	Arguments passed to cutree, particularly either of thresholds h or k.
size, distMethod, hclustMethod	Arguments (as well as some of ...) passed to *hclustCNs().
merge	If TRUE, consecutive segments that belong to the same PSCN cluster will be merged into one large segment.
update	If TRUE, segment means are updated afterwards, otherwise not.
verbose	See Verbose.

Value

Returns a pruned object of the same class.

Author(s)

Henrik Bengtsson

Examples

## Not run: 
 fitP <- pruneByHClust(fit, h=0.25)

## End(Not run)

PSCBS documentation built on May 29, 2024, 5:59 a.m.