Analysis of Parent-Specific DNA Copy Numbers

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Documentation for package ‘PSCBS’ version 0.68.0

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

Help Pages

PSCBS-package	Package PSCBS
callSegmentationOutliers	Calls/drops single-locus outliers along the genome
callSegmentationOutliers.data.frame	Calls/drops single-locus outliers along the genome
callSegmentationOutliers.default	Calls/drops single-locus outliers along the genome
CBS	The CBS class
dropSegmentationOutliers	Calls/drops single-locus outliers along the genome
dropSegmentationOutliers.data.frame	Calls/drops single-locus outliers along the genome
dropSegmentationOutliers.default	Calls/drops single-locus outliers along the genome
findLargeGaps	Identifies gaps of a genome where there exist no observations
findLargeGaps.data.frame	Identifies gaps of a genome where there exist no observations
findLargeGaps.default	Identifies gaps of a genome where there exist no observations
gapsToSegments	Gets the genomic segments that are complementary to the gaps
gapsToSegments.data.frame	Gets the genomic segments that are complementary to the gaps
NonPairedPSCBS	The NonPairedPSCBS class
PairedPSCBS	The PairedPSCBS class
PSCBS	The PSCBS class
segmentByCBS	Segment genomic signals using the CBS method
segmentByCBS.CBS	Segment genomic signals using the CBS method
segmentByCBS.CNA	Segment genomic signals using the CBS method
segmentByCBS.data.frame	Segment genomic signals using the CBS method
segmentByCBS.default	Segment genomic signals using the CBS method
segmentByNonPairedPSCBS	Segment total copy numbers and allele B fractions using the Non-paired PSCBS method
segmentByNonPairedPSCBS.data.frame	Segment total copy numbers and allele B fractions using the Non-paired PSCBS method
segmentByNonPairedPSCBS.default	Segment total copy numbers and allele B fractions using the Non-paired PSCBS method
segmentByNonPairedPSCBS.PairedPSCBS	Segment total copy numbers and allele B fractions using the Non-paired PSCBS method
segmentByPairedPSCBS	Segment total copy numbers and allele B fractions using the Paired PSCBS method
segmentByPairedPSCBS.data.frame	Segment total copy numbers and allele B fractions using the Paired PSCBS method
segmentByPairedPSCBS.default	Segment total copy numbers and allele B fractions using the Paired PSCBS method
segmentByPairedPSCBS.PairedPSCBS	Segment total copy numbers and allele B fractions using the Paired PSCBS method