Pearson’S Correlation Method In R

Question

[sebabiokr]

Dear Biostar,

I would like to perform Pearson’s correlation of OTUs taxa against metabolomics data.

i have OTUs taxa abundance and metabolomics data for each samples.

Is there any method or tutorials?

Thank you

Seba

Answer 1

[Jimbou]

This website is very helpful:

http://www.statmethods.net/stats/correlations.html

and cor.test is my option of choice

http://stat.ethz.ch/R-manual/R-devel/library/stats/html/cor.test.html

For example:

cor.test(x, y,alternative = c("two.sided"),method = c("pearson"))

Answer 2

[arno.guille]

mat = matrix(rnorm(1000),ncol=10,nrow=100)
cor(mat)

'var', 'cov' and 'cor' compute the variance of 'x' and the covariance or correlation of 'x' and 'y' if these are vectors. If 'x' and 'y' are matrices then the covariances (or correlations) between the columns of 'x' and the columns of 'y' are computed.