(Package: calmate) :
Package calmate
A multi-array post-processing method of allele-specific copy-number estimates (ASCNs).
● Data Source:
CranContrib
● Keywords: package
● Alias: calmate, calmate-package
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fitCalMaTe.matrix
(Package: calmate) :
Calibrates SNP loci according to the CalMaTe method
Calibrates SNP loci according to the CalMaTe method. Note: This is an internal function of the package, which is kept only kept to provide easy access to the internal fit functions. It it actually not elsewhere in the package, and should nor by others.
● Data Source:
CranContrib
● Keywords: internal, methods
● Alias: fitCalMaTe, fitCalMaTe.matrix
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Normalize allele-specific copy numbers (total,fracB), where total is the total (non-polymorphic) signal and fracB is the allele B fraction. It is only loci with a non-missing (NA) fracB value that are considered to be SNPs and normalized by CalMaTe. The other loci are left untouched.
● Data Source:
CranContrib
● Keywords: methods
● Alias: calmateByTotalAndFracB.array
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Package: calmate
Class CalMaTeCalibration
● Data Source:
CranContrib
● Keywords: classes
● Alias: CalMaTeCalibration
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fitCalMaTeInternal
(Package: calmate) :
Algorithms to fit the CalMaTe model for a single SNP
Algorithms to fit the CalMaTe model for a single SNP. Note: These are internal functions of the package. They should not be used elsewhere.
● Data Source:
CranContrib
● Keywords: documentation, internal
● Alias: fitCalMaTeInternal
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fitCalMaTeCNprobes.matrix
(Package: calmate) :
Normalizes non-polymorphic copy number loci according to the CalMaTe method
Normalizes non-polymorphic copy number loci according to the CalMaTe method.
● Data Source:
CranContrib
● Keywords: internal, methods
● Alias: fitCalMaTeCNprobes, fitCalMaTeCNprobes.matrix
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Converts an Jx2xI array between (thetaA,thetaB) and (total,fracB) formats.
● Data Source:
CranContrib
● Keywords: internal, methods
● Alias: thetaAB2TotalAndFracB.array
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Normalize allele-specific copy numbers (CA,CB).
● Data Source:
CranContrib
● Keywords: methods
● Alias: calmateByThetaAB.array
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This page contains aliases for all "non-documented" objects that R CMD check detects in this package.
● Data Source:
CranContrib
● Keywords: documentation, internal
● Alias: Non-documented objects
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providing 
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