msfit {pvclust} | R Documentation |
Curve Fitting for Multiscale Bootstrap Resampling
Description
msfit
performs curve fitting for multiscale
bootstrap resampling. It generates an object of class
msfit
. Several generic methods are available.
Usage
msfit(bp, r, nboot)
## S3 method for class 'msfit'
plot(x, curve=TRUE, main=NULL, sub=NULL, xlab=NULL, ylab=NULL, ...)
## S3 method for class 'msfit'
lines(x, col=2, lty=1, ...)
## S3 method for class 'msfit'
summary(object, digits=3, ...)
Arguments
bp |
numeric vector of bootstrap probability values. |
r |
numeric vector of relative sample size of bootstrap samples
defined as |
nboot |
numeric value (vector) of the number of bootstrap replications. |
x |
object of class |
curve |
logical. If |
main , sub , xlab , ylab , col , lty |
generic graphic parameters. |
object |
object of class |
digits |
integer indicating the precision to be used in rounding. |
... |
other parameters to be used in the functions. |
Details
function msfit
performs the curve fitting for multiscale
bootstrap resampling. In package pvclust
this function is only
called from the function pvclust
(or parPvclust
), and
may never be called from users. However one can access a list of
msfit
objects by x$msfit
, where x
is an object of
class pvclust
.
Value
msfit
returns an object of class msfit
. It contains
the following objects:
p |
numeric vector of |
se |
numeric vector of estimated standard errors of |
coef |
numeric vector related to geometric aspects of
hypotheses. |
df |
numeric value of the degree of freedom in curve fitting. |
rss |
residual sum of squares. |
pchi |
|
Author(s)
Ryota Suzuki suzuki@ef-prime.com
References
Shimodaira, H. (2004) "Approximately unbiased tests of regions using multistep-multiscale bootstrap resampling", Annals of Statistics, 32, 2616-2641.
Shimodaira, H. (2002) "An approximately unbiased test of phylogenetic tree selection", Systematic Biology, 51, 492-508.