estimate.default {lava} | R Documentation

## Estimation of functional of parameters

### Description

Estimation of functional of parameters. Wald tests, robust standard errors, cluster robust standard errors, LRT (when `f` is not a function)...

### Usage

    ## Default S3 method:
    estimate(x = NULL, f = NULL, ..., data, id, iddata,
      stack = TRUE, average = FALSE, subset, score.deriv, level = 0.95,
      iid = TRUE, type = c("robust", "df", "mbn"), keep, use, contrast, null,
      vcov, coef, robust = TRUE, df = NULL, print = NULL, labels, label.width,
      only.coef = FALSE, back.transform = NULL, folds = 0, cluster, R = 0,
      null.sim)

### Arguments

`x` | model object (`glm`, `lvmfit`, ...)
`f` | transformation of model parameters and (optionally) data, or contrast matrix (or vector)
`...` | additional arguments to lower level functions
`data` | `data.frame`
`id` | (optional) id-variable corresponding to iid decomposition of model parameters.
`iddata` | (optional) id-variable for 'data'
`stack` | if TRUE (default) the i.i.d. decomposition is automatically stacked according to 'id'
`average` | if TRUE averages are calculated
`subset` | (optional) subset of data.frame on which to condition (logical expression or variable name)
`score.deriv` | (optional) derivative of mean score function
`level` | level of confidence limits
`iid` | if TRUE (default) the iid decompositions are also returned (extract with `iid` method)
`type` | type of small-sample correction
`keep` | (optional) index of parameters to keep from final result
`use` | (optional) index of parameters to use in calculations
`contrast` | (optional) Contrast matrix for final Wald test
`null` | (optional) null hypothesis to test
`vcov` | (optional) covariance matrix of parameter estimates (e.g. Wald-test)
`coef` | (optional) parameter coefficient
`robust` | if TRUE robust standard errors are calculated. If FALSE p-values for linear models are calculated from t-distribution
`df` | degrees of freedom (default obtained from 'df.residual')
`print` | (optional) print function
`labels` | (optional) names of coefficients
`label.width` | (optional) max width of labels
`only.coef` | if TRUE only the coefficient matrix is return
`back.transform` | (optional) transform of parameters and confidence intervals
`folds` | (optional) aggregate influence functions (divide and conquer)
`cluster` | (obsolete) alias for 'id'.
`R` | Number of simulations (simulated p-values)
`null.sim` | Mean under the null for simulations

### Details

iid decomposition

√{n}(\widehat{θ}-θ) = ∑_{i=1}^nε_i + o_p(1)

can be extracted with the `iid` method.

### Examples

    ## Simulation from logistic regression model
    m <- lvm(y~x+z);
    distribution(m,y~x) <- binomial.lvm("logit")
    d <- sim(m,1000)
    g <- glm(y~z+x,data=d,family=binomial())
    g0 <- glm(y~1,data=d,family=binomial())

    ## LRT
    estimate(g,g0)

    ## Plain estimates (robust standard errors)
    estimate(g)

    ## Testing contrasts
    estimate(g,null=0)
    estimate(g,rbind(c(1,1,0),c(1,0,2)))
    estimate(g,rbind(c(1,1,0),c(1,0,2)),null=c(1,2))
    estimate(g,2:3) ## same as cbind(0,1,-1)
    estimate(g,as.list(2:3)) ## same as rbind(c(0,1,0),c(0,0,1))
    ## Alternative syntax
    estimate(g,"z","z"-"x",2*"z"-3*"x")
    estimate(g,z,z-x,2*z-3*x)
    estimate(g,"?")  ## Wilcards
    estimate(g,"*Int*","z")
    estimate(g,"1","2"-"3",null=c(0,1))
    estimate(g,2,3)

    ## Usual (non-robust) confidence intervals
    estimate(g,robust=FALSE)

    ## Transformations
    estimate(g,function(p) p[1]+p[2])

    ## Multiple parameters
    e <- estimate(g,function(p) c(p[1]+p[2],p[1]*p[2]))
    e
    vcov(e)

    ## Label new parameters
    estimate(g,function(p) list("a1"=p[1]+p[2],"b1"=p[1]*p[2]))
    ##'
    ## Multiple group
    m <- lvm(y~x)
    m <- baptize(m)
    d2 <- d1 <- sim(m,50)
    e <- estimate(list(m,m),list(d1,d2))
    estimate(e) ## Wrong
    estimate(e,id=rep(seq(nrow(d1)),2))
    estimate(lm(y~x,d1))

    ## Marginalize
    f <- function(p,data)
      list(p0=lava:::expit(p["(Intercept)"] + p["z"]*data[,"z"]),
           p1=lava:::expit(p["(Intercept)"] + p["x"] + p["z"]*data[,"z"]))
    e <- estimate(g, f, average=TRUE)
    e
    estimate(e,diff)
    estimate(e,cbind(1,1))

    ## Clusters and subset (conditional marginal effects)
    d$id <- rep(seq(nrow(d)/4),each=4)
    estimate(g,function(p,data)
             list(p0=lava:::expit(p[1] + p["z"]*data[,"z"])),
             subset=d$z>0, id=d$id, average=TRUE)

    ## More examples with clusters:
    m <- lvm(c(y1,y2,y3)~u+x)
    d <- sim(m,10)
    l1 <- glm(y1~x,data=d)
    l2 <- glm(y2~x,data=d)
    l3 <- glm(y3~x,data=d)

    ## Some random id-numbers
    id1 <- c(1,1,4,1,3,1,2,3,4,5)
    id2 <- c(1,2,3,4,5,6,7,8,1,1)
    id3 <- seq(10)

    ## Un-stacked and stacked i.i.d. decomposition
    iid(estimate(l1,id=id1,stack=FALSE))
    iid(estimate(l1,id=id1))

    ## Combined i.i.d. decomposition
    e1 <- estimate(l1,id=id1)
    e2 <- estimate(l2,id=id2)
    e3 <- estimate(l3,id=id3)
    (a2 <- merge(e1,e2,e3))

    ## If all models were estimated on the same data we could use the
    ## syntax:
    ## Reduce(merge,estimate(list(l1,l2,l3)))

    ## Same:
    iid(a1 <- merge(l1,l2,l3,id=list(id1,id2,id3)))

    iid(merge(l1,l2,l3,id=TRUE)) # one-to-one (same clusters)
    iid(merge(l1,l2,l3,id=FALSE)) # independence

    ## Monte Carlo approach, simple trend test example

    m <- categorical(lvm(),~x,K=5)
    regression(m,additive=TRUE) <- y~x
    d <- simulate(m,100,seed=1,'y~x'=0.1)
    l <- lm(y~-1+factor(x),data=d)

    f <- function(x) coef(lm(x~seq_along(x)))[2]
    null <- rep(mean(coef(l)),length(coef(l))) ## just need to make sure we simulate under H0: slope=0
    estimate(l,f,R=1e2,null.sim=null)

    estimate(l,f)

[Package lava version 1.5.1 Index]