R: Logspline Density Estimation - 1992 version

oldlogspline {logspline} | R Documentation

## Logspline Density Estimation - 1992 version

### Description

Fits a `logspline` density using splines to approximate the log-density using the 1992 knot deletion algorithm (`oldlogspline`). The 1997 algorithm using knot deletion and addition is available using the `logspline` function.

### Usage

    oldlogspline(uncensored, right, left, interval, lbound,
    ubound, nknots, knots, penalty, delete = TRUE)

### Arguments

`uncensored` | vector of uncensored observations from the distribution whose density is to be estimated. If there are no uncensored observations, this argument can be omitted. However, either `uncensored` or `interval` must be specified.
`right` | vector of right censored observations from the distribution whose density is to be estimated. If there are no right censored observations, this argument can be omitted.
`left` | vector of left censored observations from the distribution whose density is to be estimated. If there are no left censored observations, this argument can be omitted.
`interval` | two column matrix of lower and upper bounds of observations that are interval censored from the distribution whose density is to be estimated. If there are no interval censored observations, this argument can be omitted.
`lbound,ubound` | lower/upper bound for the support of the density. For example, if there is a priori knowledge that the density equals zero to the left of 0, and has a discontinuity at 0, the user could specify `lbound = 0`. However, if the density is essentially zero near 0, one does not need to specify `lbound`. The default for `lbound` is `-inf` and the default for `ubound` is `inf`.
`nknots` | forces the method to start with nknots knots (`delete = TRUE`) or to fit a density with nknots knots (`delete = FALSE`). The method has an automatic rule for selecting nknots if this parameter is not specified.
`knots` | ordered vector of values (that should cover the complete range of the observations), which forces the method to start with these knots (`delete = TRUE`) or to fit a density with these knots `delete = FALSE`). Overrules `nknots`. If `knots` is not specified, a default knot-placement rule is employed.
`penalty` | the parameter to be used in the AIC criterion. The method chooses the number of knots that minimizes `-2 * loglikelihood + penalty * (number of knots - 1)`. The default is to use a penalty parameter of `penalty = log(samplesize)` as in BIC. The effect of this parameter is summarized in `summary.oldlogspline`.
`delete` | should stepwise knot deletion be employed?

### Value

Object of the class `oldlogspline`, that is intended as input for `plot.oldlogspline`, `summary.oldlogspline`, `doldlogspline` (densities), `poldlogspline` (probabilities),
`qoldlogspline` (quantiles), `roldlogspline` (random numbers from the fitted distribution). The function `oldlogspline.to.logspline` can translate an object of the class `oldlogspline` to an object of the class `logspline`.

The object has the following members:

`call` | the command that was executed.
`knots` | vector of the locations of the knots in the `oldlogspline` model. old
`coef` | coefficients of the spline. The first coefficient is the constant term, the second is the linear term and the k-th (k>2) is the coefficient of (x-t(k-2))^3_+ (where x^3_+ means the positive part of the third power of x, and t(k-2) means knot k-2). If a coefficient is zero the corresponding knot was deleted from the model.
`bound` | first element: 0 - `lbound` was -infinity, 1 it was something else; second element: `lbound`, if specified; third element: 0 - `ubound` was infinity, 1 it was something else; fourth element: `ubound`, if specified.
`logl` | the `k`-th element is the log-likelihood of the fit with `k+2` knots.
`penalty` | the penalty that was used.
`sample` | the sample size that was used.
`delete` | was stepwise knot deletion employed?

### Author(s)

Charles Kooperberg clk@fredhutch.org.

### References

Charles Kooperberg and Charles J. Stone. Logspline density estimation for censored data (1992). Journal of Computational and Graphical Statistics, 1, 301–328.

Charles J. Stone, Mark Hansen, Charles Kooperberg, and Young K. Truong. The use of polynomial splines and their tensor products in extended linear modeling (with discussion) (1997). Annals of Statistics, 25, 1371–1470.

### See Also

`logspline`, `oldlogspline`, `plot.oldlogspline`, `summary.oldlogspline`,
`doldlogspline`, `poldlogspline`, `qoldlogspline`, `roldlogspline`, `oldlogspline.to.logspline`.

### Examples

    # A simple example
    y <- rnorm(100)
    fit <- oldlogspline(y)
    plot(fit)
    # An example involving censoring and a lower bound
    y <- rlnorm(1000)
    censoring <- rexp(1000) * 4
    delta <- 1 * (y <= censoring)
    y[delta == 0] <- censoring[delta == 0]
    fit <- oldlogspline(y[delta == 1], y[delta == 0], lbound = 0)

[Package logspline version 2.1.13 Index]