centerAutosomesAt |
Center estimates of copy number for autosomes. |
cnEmission |
Calculate emission probabilities for total copy number |
cnEmission-method |
Methods for Function 'cnEmission' in Package 'VanillaICE' |
cnEmission-methods |
Methods for Function 'cnEmission' in Package 'VanillaICE' |
gtEmission |
Calculate emission probabilities for genotypes |
gtEmission-method |
Methods for calculating the emission probabilities of diallelic genotypes in Package 'VanillaICE' |
gtEmission-methods |
Methods for calculating the emission probabilities of diallelic genotypes in Package 'VanillaICE' |
hmm |
Application of the Viterbi algorithm to copy number and/or genotype data. |
hmm-method |
A container for storing options for the hidden Markov model |
hmm.setup |
Constructors for HmmOptionList class |
HmmOptionList |
Constructors for HmmOptionList class |
HmmOptionList-class |
A container for storing options for the hidden Markov model |
hmmResults |
Example output from hmm |
icePlatforms |
List platforms for which ICE option is supported. |
order-method |
Methods for oligoSnpSet class |
robustSds |
Calculate robust estimates of the standard deviation |
sd |
Methods for estimating copy number standard deviations. |
sd-method |
Methods for oligoSnpSet class |
sd-method |
Methods for estimating copy number standard deviations. |
sd-methods |
Methods for estimating copy number standard deviations. |
xypanel |
A panel function for plotting copy number versus physical position |
xyplot |
Plot copy number and physical position for a set of genomic intervals. |
xyplot-method |
Plot copy number and physical position for a set of genomic intervals. |
xyplot2 |
Plot copy number and physical position for a set of genomic intervals. |
xyplot2-method |
Plot copy number and physical position for a set of genomic intervals. |