a list of initial values for the parameters genoCNV.
Usage
data(init.Para.CNV)
Format
The format is a list of 16 items
pi.r a vector of length N, where N is the number of states.
pi.r[j] is the prior probability of the uniform component of
log R ratio for state j
mu.r a vector of length N, where N is the number of states.
mu.r[j] is mean value of the normal component of
log R ratio for state j
sd.r a vector of length N, where N is the number of states.
sd.r[j] is standard deviation of the normal component of
log R ratio for state j
mu.r.upper, mu.r.lower two vectors of the same size of mu.r,
incating the upper/lower bound of mu.r
sd.r.upper, sd.r.lower two vectors of the same size of sd.r,
indicating the upper/lower bound of sd.r
pi.b a vector of length N, where N is the number of states.
pi.b[j] is the prior probability of the uniform component of
B allele frequency for state j
mu.b a matrix of N*M, where N is the number of states,
and M is the maximum number of components of each states.
mu.b[i,j] indicates the mean value of the j-th component of
the i-th state
sd.b a matrix of the same size of mu.b, specifying the
standard deviations
mu.b.upper, mu.b.lower two matrices of the same size of mu.b,
incating the upper/lower bound of mu.b
sd.b.upper, sd.b.lower two matrices of the same size of sd.b,
indicating the upper/lower bound of sd.b
trans.m transition probability matrix of size N*N.
The diagonal elements are not used.
trans.begin a matrix of size S*N, where S is the number
of chromosomes, and N is the number of states. trans.begin[s,] are
the state probabilities for the fist probe of the s-th chromosome.
By default, we assume there is only one chromosome, therefore it is
a matrix of 1*N.
Examples
data(init.Para.CNV)
Results
R version 3.3.1 (2016-06-21) -- "Bug in Your Hair"
Copyright (C) 2016 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu (64-bit)
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> library(genoCN)
> png(filename="/home/ddbj/snapshot/RGM3/R_BC/result/genoCN/init.Para.CNV.Rd_%03d_medium.png", width=480, height=480)
> ### Name: init.Para.CNV
> ### Title: Initial parameters for the HMM of genoCNV
> ### Aliases: init.Para.CNV
> ### Keywords: datasets
>
> ### ** Examples
>
> data(init.Para.CNV)
>
>
>
>
>
> dev.off()
null device
1
>
providing 
.