R help - Feb 2013 - plot significant spearman correlation

Hello,

I calculate the correlation between two matrices cor(x,y,
method="spearman")
and I am wondering if it possible to see only the significant correlations. I
can do that for single OTUs with cor.test() command but I would like to have an
output for whole matrix. Besides,I would like to plot the relative abundance of
each OTU, against the number of significant pair-wise correlations to other
OTUs. However, I do not know how to introduce p <.05 parameter in the script.

Thank you very much!

Ozgul

On 05.02.2013 17:08, Ozgul Inceoglu wrote:
>
> Hello,
>
> I calculate the correlation between two matrices cor(x,y,
method="spearman")
> and I am wondering if it possible to see only the significant correlations.
I can do that for single OTUs with cor.test() command but I would like to have
an output for whole matrix. Besides,I would like to plot the relative abundance
of each OTU, against the number of significant pair-wise correlations to other
OTUs. However, I do not know how to introduce p <.05 parameter in the script.
Please read the posting guide that suggests to submit reproducible code.
We can hardly help "how to introduce p <.05 parameter in the
script" if
we do not know that script.

Best,
Uwe Ligges
>
> Thank you very much!
>
> Ozgul
>
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