Hi Michael,
coinertia(op.dudi, em3.dudi)
Error in paste(COCA, 1:n.axes, sep = ) : element 2 is empty;
Something makes me think that this is not the full error message, or the
correct error message, or that you have something else in your call to
coinertia?
Why? Because you also list this:
coinertia(op.dudi, em3.dudi, n.axes = 2)
Error in sqrt(Dp) : Non-numeric argument to mathematical function
Fact is, coinertia does not accept n.axes as an argument, it uses nf =
to specify the number of axes.
The function paste(), which is generating the error message, is used in
coinertia(). All I can say from what you have given is do it again with a
clean environment, and make sure that you are using the correct arguments to
coinertia.
Are you able to debug? If not send me your data and I will fix/find the
problem.
Regards, Mark.
Michael Kubovy wrote:
Dear R-helpers,
I have two data frames, op and em4:
str(op)
'data.frame': 37 obs. of 5 variables:
$ m: num 0.202 0.336 0.122 0.139 0.14 ...
$ lln : num 0.798 0.643 0.863 0.835 0.823 ...
$ rrn : num 0.789 0.702 0.894 0.895 0.923 ...
$ asym2: num 0.177 0.304 0.108 0.187 0.274 ...
$ asym3: num 0.0755 0.0975 0.0818 0.0651 0.13 ...
str(rownames(op))
chr [1:37] abov-belw ampl-rstr angl-rndd ascn-dscn ...
str(em3)
'data.frame': 37 obs. of 9 variables:
$ B--: int 4 1 12 14 0 3 2 15 3 5 ...
$ P--: int 4 1 2 3 5 15 1 0 3 1 ...
$ U--: int 10 16 4 1 13 0 15 3 12 12 ...
$ --B: int 5 13 10 15 6 1 5 16 5 8 ...
$ --P: int 6 2 5 2 12 16 5 0 13 10 ...
$ --U: int 7 3 3 1 0 1 8 2 0 0 ...
$ -N-: int 0 2 11 0 17 0 1 0 14 3 ...
$ -P-: int 15 0 2 16 0 2 2 16 0 0 ...
$ -R-: int 3 16 5 2 1 16 15 2 4 15 ...
str(rownames(em3))
chr [1:37] abov-belw ampl-rstr angl-rndd ascn-dscn asym-
symm end-bgnn ...
Thus the 37 rownames in both are the same.
Now I do a pca of op:
(op.dudi - dudi.pca(op, scale = F, scan = F))
Duality diagramm
class: pca dudi
$call: dudi.pca(df = op, scale = F, scannf = F)
$nf: 2 axis-components saved
$rank: 5
eigen values: 0.09233 0.03109 0.01322 0.002024 0.0001017
vector length modecontent
1 $cw5 numeric column weights
2 $lw37 numeric row weights
3 $eig 5 numeric eigen values
data.frame nrow ncol content
1 $tab 37 5modified array
2 $li37 2row coordinates
3 $l137 2row normed scores
4 $co52column coordinates
5 $c152column normed scores
other elements: cent norm
and of em3
(em3.dudi - dudi.pca(em3, scale = F, scan = F))
Duality diagramm
class: pca dudi
$call: dudi.pca(df = em3, scale = F, scannf = F)
$nf: 2 axis-components saved
$rank: 6
eigen values: 105.5 80.73 55.08 24.06 8.83 ...
vector length modecontent
1 $cw9 numeric column weights
2 $lw37 numeric row weights
3 $eig 6 numeric eigen values
data.frame nrow ncol content
1 $tab 37 9modified array
2 $li37 2row coordinates
3 $l137 2row normed scores
4 $co92column coordinates
5 $c192column normed scores
other elements: cent norm
I would like to do a coinertia analysis between the two results.
coinertia(op.dudi, em3.dudi)
Error in paste(COCA, 1:n.axes, sep = ) : element 2 is empty;
the part of the args list of ':' being evaluated was:
(1, n.axes)
coinertia(op.dudi, em3.dudi, n.axes = 2)
Error in sqrt(Dp) : Non-numeric argument to mathematical function
Can anyone tell me why the coinertia fails, and how to fix it? I would
be happy to send the two data files, if you were willing to help.
Thanks,
MK
_
Professor Michael Kubovy
University of Virginia
Department of Psychology
Postal Address:
P.O.Box 400400, Charlottesville, VA 22904-4400
Express Parcels Address:
Gilmer Hall, Room 102, McCormick Road, Charlottesville, VA 22903
Office:B011; Phone: +1-434-982-4729
Lab:B019; Phone: +1-434-982-4751
WWW:http://www.people.virginia.edu/~mk9y/
Skype name: polyurinsane
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