Description Usage Arguments Details
Calculates a Q matrix for reduced BiChroM model
1 2 | Q_reducedbichrom(log.pars, size, equal.param = c("rho0", "rho1"),
location.par = 5)
|
log.pars |
a vector of size 9 with ln values of parameters (lambda0, lambda1, mu0, mu1, rho, q01, q10, e0, e1 ) |
size |
Maximum number of chromosomes in the sample (recommended no more than 50, states larger than that should be coded as 51) |
equal.param |
by default "rho0"="rho1" but user can specify the parameters forced to be equal |
location |
position in log.pars where the value of the equal.param is located, by default location=5 |
This function assumes that two parameter values are equal. This is useful for calculating likelihood ratio tests in BiChrom. By default the two parameters assumed equal are "rho0"="rho1" but user can specify which two parameters are the same
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