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incompatible dimensions error

2 messages · Andrew Halford, Jiefei Wang

#
Hi Listers

Using mvpart to run a MV regression tree with PCA= TRUE to get a PCA
plotted with sites coloured according to the tree output.

Unfortunately it wont produce the PCA, instead giving the error message..

Error in cor(xall, xx[order(tree$where), ]) : incompatible dimensions.

However, when I run a PCA on the data using the rda command I have no
problems producing a PCA.

data is attached as a text file

my code is thus...
fish05.hel <- decostand(fish05,"hellinger")
fish05.mrt <-
mvpart(data.matrix(fish05.hel)~.,env,margin=0.08,cp=0,rsq=TRUE,xv="pick",xval=nrow(fish05),xvmult=100,which=4,pca=TRUE)

The tree is produced no problem but it wont produce a PCA.

I am just keen to understand what this error means as I dont see anything
unusual about the dataset used, notwithstanding the data is rather messy.

Andy
#
Hi,

It seems like the package "mvpart" is quite outdated and not available for
the current R release. Since PCA is a very common need I'll suggest finding
a replacement for it so that the error will either go away, or it is easier
for us to reproduce it.

Best,
Jiefei

On Tue, Aug 25, 2020 at 1:06 PM Andrew Halford <andrew.halford at gmail.com>
wrote: