R: Bootstrap a seq.data from a Fitted Model.

bootstrap.seq.data {phyclust} | R Documentation

## Bootstrap a seq.data from a Fitted Model.

### Description

This function simplifies the bootstrap function `bootstrap.star.trees.seq()`, and only return a list object with class `seq.data`.

### Usage

    bootstrap.seq.data(ret.phyclust, min.n.class = 1)

### Arguments

`ret.phyclust` | a phyclust object in `Class phyclust`.
`min.n.class` | minimum number of sequences for a cluster.

### Details

`ret.phyclust` is a phyclust object in `Class phyclust` which is usually fitted by `phyclust`, or returned by `phyclust.m.step`.

`min.n.class` is a boundary condition to avoid degenerate clusters when some population proportions, eta_k, are small in the fitted model.

### Value

Return an object in `Class seq.data` as the result from `read.*()`.

### Author(s)

Wei-Chen Chen wccsnow@gmail.com

### References

Phylogenetic Clustering Website: https://snoweye.github.io/phyclust/

### See Also

`phyclust`, `bootstrap.star.trees`, `Class seq.data`.

### Examples

    ## Not run:
    library(phyclust, quiet = TRUE)

    set.seed(1234)
    EMC.1 <- .EMC
    EMC.1$EM.iter <- 1
    # the same as EMC.1 <- .EMControl(EM.iter = 1)

    ret.1 <- phyclust(seq.data.toy$org, 2, EMC = EMC.1)
    (ret.all <- bootstrap.seq.data(ret.1))

    ## End(Not run)

[Package phyclust version 0.1-30 Index]