Allison,
I think you're right about your suspicion - would you be willing to send me
your data and tree so that I could take a look myself (I'll be in my office
tomorrow)?
I also noticed that you wrote to me directly, earlier. Apologies for not
seeing that message - I have been very lax in my communication since having
to switch to remote teaching for my classes. But I will do my best to get
back to you soon!
Trista
On Sat, Apr 4, 2020 at 7:24 PM Allison Luger <allison.lu...@ugent.be> wrote:
> Dear all,
>
> I am trying to run a convergence analysis on a dataset using the convevol
> package in R. For this I loaded in a dataset containing data on 27 species
> (each with 5 variables) and a phylogenetic tree (including all 27 species).
> However, when doing the analysis at the last step (convrat) I get an error.
> Here is part of the code:
>
> example<-read.table("link\\to\\dataset.txt", header=TRUE)
> phendata<-example[,3:7]
>
> mammaltree <- read.nexus("MammaltreeONE.nex")
> pruned.tree <- drop.tip(mammaltree,
> mammaltree$tip.label[-match(specieslist, mammaltree$tip.label)])
>
>
> convtips_PR<-c("Species1","Species2","Species3","Species4","Species5","Species6","Species7","Species8","Species9")
> x<-convrat(pruned.tree, phendata, convtips_PR)
>
> And this is the error I am getting:
>
> Error in Ops.data.frame(lineagepaths[[2]][ii, ], lineagepaths[[2]][ii + :
>
> '-' only defined for equally-sized data frames
>
> I have the suspicion that my dataframes are not in the same format, but I
> am not sure what this could mean and how to solve this. Any help is
> welcome! Thank you!
>
> Allison Luger
>
> PhD Candidate Ghent University
>
> [[alternative HTML version deleted]]
>
> _______________________________________________
> R-sig-phylo mailing list - R-sig-phylo@r-project.org
> https://stat.ethz.ch/mailman/listinfo/r-sig-phylo
> Searchable archive at
> http://www.mail-archive.com/r-sig-phylo@r-project.org/
>
--
C. Tristan Stayton
Associate Professor of Biology
Bucknell University
Lewisburg, PA 17837
Office: 570-577-3272
[[alternative HTML version deleted]]
_______________________________________________
R-sig-phylo mailing list - R-sig-phylo@r-project.org
https://stat.ethz.ch/mailman/listinfo/r-sig-phylo
Searchable archive at http://www.mail-archive.com/r-sig-phylo@r-project.org/
