% Generated by roxygen2: do not edit by hand

% Please edit documentation in R/2-3.RMT.R

\name{RMT_threshold}

\alias{RMT_threshold}

\alias{rmt}

\title{Get RMT threshold for a correlation matrix}

\usage{

RMT_threshold(

  occor.r,

  out_dir,

  min_threshold = 0.5,

  max_threshold = 0.8,

  step = 0.02,

  gif = FALSE,

  verbose = FALSE

)

rmt(occor.r, min_threshold = 0.5, max_threshold = 0.85, step = 0.01)

}

\arguments{

\item{occor.r}{a corr object or a correlation matrix}

\item{out_dir}{output dir}

\item{min_threshold}{min_threshold}

\item{max_threshold}{max_threshold}

\item{step}{step}

\item{gif}{render a .gif file?}

\item{verbose}{verbose}

}

\value{

a r-threshold

recommend threshold

}

\description{

Get RMT threshold for a correlation matrix

Get RMT threshold for a correlation matrix roughly

}

\examples{

\donttest{

data(otutab, package = "pcutils")

t(otutab) -> totu

c_net_calculate(totu) -> corr

rmt(corr)

# recommend: 0.69

c_net_build(corr, r_threshold = 0.69) -> co_net_rmt

}

}

\references{

J. Zhou, Y. Deng, FALSE. Luo, Z. He, Q. Tu, X. Zhi, (2010) Functional Molecular Ecological Networks, doi:10.1128/mBio.00169-10.

\url{https://matstat.org/content_en/RMT/RMThreshold_Intro.pdf}

}