Nothing
### Function to run MH draw for phi given
### count y.pred, number of codons n.pred, coefficients b.
###
### Performs vectorized draw.
### Assumes phi.Curr.pred, y.pred, & n.pred are vectors of length # of genes;
### b is 2-dim vector; sigmaWsq is scalar.
###
### Returns list with elements:
### * phi.New : new value for phi resulting from MH draw
### * accept: boolean vector indicating if each proposal was accepted
my.drawPhiConditionalAllPred <- function(phi.Curr, y, n, b,
p.Curr, reu13.df = NULL){
### Propose new phi.
prop <- .cubfitsEnv$my.proposePhiAllPred(phi.Curr)
### Calculate acceptance prob.
lpCurr <- .cubfitsEnv$my.logPosteriorAllPred(
phi.Curr, y, n, b, p.Curr, reu13.df = reu13.df)
lpProp <- .cubfitsEnv$my.logPosteriorAllPred(
prop$phi.Prop, y, n, b, p.Curr, reu13.df = reu13.df)
logAcceptProb <- lpProp - lpCurr - prop$lir
### Run MH acceptance rule.
u <- runif(length(phi.Curr))
accept <- u < exp(logAcceptProb)
phi.New <- phi.Curr
phi.New[accept] <- prop$phi.Prop[accept]
### Extra update and trace.
my.update.acceptance("phi.pred", accept)
my.update.adaptive("phi.pred", accept)
### Return.
ret <- phi.New
ret
} # End of my.drawPhiConditionalAllPred().
Any scripts or data that you put into this service are public.
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.