Dear all,
I am trying to get a PERMANOVA with quite large data set. I am reading a lot
about this question, but I do not get the answer about it. Although I know
that the R function is adonis () (vegan package), it does not work:
adonis(Pha.env~SPha, data=Pha, permutations=10)
The error message:
Error: cannot allocate vector of size 334.2 Mb
In addition: Warning messages:
1: In vegdist(lhs, method = method, ...) :
Reached total allocation of 1535Mb: see help(memory.size)
2: In vegdist(lhs, method = method, ...) :
Reached total allocation of 1535Mb: see help(memory.size)
3: In vegdist(lhs, method = method, ...) :
Reached total allocation of 1535Mb: see help(memory.size)
4: In vegdist(lhs, method = method, ...) :
Reached total allocation of 1535Mb: see help(memory.size)
When I have received this message from R usually it is due to an incorrect
introduction of the function elements (i.e., memory message errors).
However, I've just checked my matrix (Pha.env is a data.frame with num or
int variables, and, Pha is a data.frame with factor variables) and the
length of matrices is the same. I know that I'm wrong somewhere specifying
the matrices in adonis(), but I can't fix it.
Thanks in advance,
Paloma
[[alternative HTML version deleted]]
______________________________________________
R-help@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
