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PSCBS (version 0.12.2)
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
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Install
install.packages('PSCBS')
Monthly Downloads
793
Version
0.12.2
License
GPL (>= 2)
Maintainer
Henrik Bengtsson
Last Published
September 2nd, 2011
Functions in PSCBS (0.12.2)
Search all functions
PairedPSCBS
The PairedPSCBS class
estimateDeltaABBySmallDH.PairedPSCBS
Estimate a threshold for calling allelic balance from DH
callAllelicBalanceByDH.PairedPSCBS
Calls segments that are in allelic balance
Non-documented objects
Non-documented objects
estimateKappa.PairedPSCBS
Estimate global background in segmented copy numbers
segmentByPairedPSCBS
Segment total copy numbers and allele B fractions using the Paired PSCBS method
plotTracks.PairedPSCBS
Plots parental specific copy numbers along the genome
segmentByCBS
Segment genomic signals using the CBS method
estimateDeltaLOHByMinC1ForNonAB.PairedPSCBS
Estimate a threshold for calling LOH from DH
installDNAcopy
Install the DNAcopy package
plotTracks.CBS
Plots copy numbers along the genome
estimateDeltaLOH.PairedPSCBS
Estimate a threshold for calling LOH from DH
callAB.PairedPSCBS
Calls segments that are in allelic balance
estimateDeltaAB.PairedPSCBS
Estimate a threshold for calling allelic balance from DH
callLOH.PairedPSCBS
Calls segments that are in LOH
PSCBS-package
Package PSCBS
estimateKappaByC1Density.PairedPSCBS
Estimate global background in segmented copy numbers
as.data.frame.PairedPSCBS
Gets the table of segments
callSegmentationOutliers
Calls single-locus outliers along the genome
weightedQuantile
Weighted Quantile Value