Learn R Programming
⚠️There's a newer version (0.68.0) of this package.Take me there.

PSCBS (version 0.11.7)

Analysis of Parent-Specific DNA Copy Numbers

Description

Segments allele-specific DNA copy number data to detect regions with abnormal copy number within each parental chromosome

Copy Link

Version

Install

install.packages('PSCBS')

Monthly Downloads

777

Version

0.11.7

License

GPL (>= 2)

Maintainer

Henrik Bengtsson

Last Published

July 23rd, 2011

Functions in PSCBS (0.11.7)

segmentByCBS

Segment genomic signals using the CBS method
estimateDeltaABBySmallDH.PairedPSCBS

Estimate a threshold for calling allelic balance from DH
Non-documented objects

Non-documented objects
callAB.PairedPSCBS

Calls segments that are in allelic balance
estimateDeltaLOH.PairedPSCBS

Estimate a threshold for calling LOH from DH
weightedQuantile

Weighted Quantile Value
estimateKappa.PairedPSCBS

Estimate global background in segmented copy numbers
installDNAcopy

Install the DNAcopy package
estimateDeltaAB.PairedPSCBS

Estimate a threshold for calling allelic balance from DH
callAllelicBalanceByDH.PairedPSCBS

Calls segments that are in allelic balance
callLOH.PairedPSCBS

Calls segments that are in LOH
callSegmentationOutliers

Calls single-locus outliers along the genome
plotTracks.PairedPSCBS

Plots parental specific copy numbers along the genome
estimateKappaByC1Density.PairedPSCBS

Estimate global background in segmented copy numbers
PairedPSCBS

The PairedPSCBS class
PSCBS-package

Package PSCBS
as.data.frame.PairedPSCBS

Gets the table of segments
plotTracks.CBS

Plots copy numbers along the genome
segmentByPairedPSCBS

Segment total copy numbers and allele B fractions using the Paired PSCBS method
estimateDeltaLOHByMinC1ForNonAB.PairedPSCBS

Estimate a threshold for calling LOH from DH