dropRegions.AbstractCBS: Drops chromosomal regions (a connected set of segments)

In HenrikBengtsson/PSCBS: Analysis of Parent-Specific DNA Copy Numbers

Drops chromosomal regions (a connected set of segments)

Description

Drops chromosomal regions (a connected set of segments) each of a certain size (number of segments). None of the statistics are recalculated.

Usage

## S3 method for class 'AbstractCBS'
dropRegions(this, regions, H=1, ..., asMissing=FALSE, verbose=FALSE)

Arguments

regions	An integer vector of length R specifying the indices of the left most segment in each of the R regions to be dropped.
H	A non-negative integer specifying the size of each region, i.e. the number of segments per region.
...	Additional arguments passed to *extractRegions().
asMissing	If TRUE, dropped segments are replaced by missing values, otherwise they are truly dropped.
verbose	A logical or a Verbose object.

Value

Returns an AbstractCBS object of the same class with (at most) R*H segments dropped. If some regions overlap (share segments), then fewer than R*H segments are dropped.

Author(s)

Henrik Bengtsson

See Also

Internally *extractRegions() is used. See also *dropChangePoint() and *mergeTwoSegments(). For more information see AbstractCBS.

HenrikBengtsson/PSCBS documentation built on Feb. 20, 2024, 9:01 p.m.