R/getD.R

In openCR: Open Population Capture-Recapture

## uses untransform()
getD <- function (designD, beta, mask, parindx, link, fixed,
                  grouplevels, sessionlevels, parameter = 'D') {
    if ((is.null(designD) | nrow(designD)==0) & (is.null(fixed[[parameter]]))) return(NULL)
    if (ms(mask))
        nmask <- max(sapply(mask, nrow))
    else
        nmask <- nrow(mask)
    ngroup <- length(grouplevels)
    nsession <- length(sessionlevels)
    D <- array(dim = c(nmask, ngroup, nsession))
    dimnames(D) <- list(1:nrow(D), grouplevels, sessionlevels)
    if (!is.null(fixed[[parameter]])) {
        D[,,] <- fixed[[parameter]]
    }
    else {
        D[,,] <- designD %*% beta[parindx[[parameter]]]   # linear predictor
        D[,,] <- untransform (D, link[[parameter]])
        # silently truncate D at zero
        if (parameter %in% c('D')) D[D<0] <- 0
    }
    D
}
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