Please see the posting guide linked below. Questions about nonstandard
packages are generally off topic here. You should probably do as the pg
recommends and contact the maintainer, who you can find by the maintainer()
function.
Bert
On Sat, May 29, 2021, 10:16 AM Gossaye Hailu <gossay...@gmail.com> wrote:
> I am doing phylogenetic analysis of ecological community data set using
> Picante package to find out PD, MPD, MNTD
> I have run the following arguments
> library(picante)
> >tree4.phylotree<-read.tree("phylojune2016.edit.phy")
> >tree4.phy<-read.csv("june2016.matrix.csv",sep=",",header = TRUE,row.names
> = 1)
> >tree4.out<-pd(tree4.phy,tree4.phylotree,include.root = FALSE)
> >tree4.out[,3]<-mpd(tree4.phy,cophenetic(tree4.phylotree))
> >tree4.out[,4]<-mntd(tree4.phy,cophenetic(tree4.phylotree))
> >names(tree4.out)[3:4]<-c("MPD","MNTD")
>
> When I randomize the matrix 999 times the following Error term appears
> >tree4.mpd<-ses.mpd(tree4.phy,cophenetic(tree4.phylotree),runs = 999)
>
> Error: C stack usage 15923904 is too close to the limit
>
> How can I solve this error please? I will highly appreciate your help!
>
> [[alternative HTML version deleted]]
>
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> and provide commented, minimal, self-contained, reproducible code.
>
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