[R] Question about correlation

[Jim Lemon]

Hi Chin Yi,
If you are trying to correlate "Health" with "Disease", i.e.

cydf<-read.table(text="OTU ID Health Disease
  Bacterial 1 0.29 0.34
  Bacterial 2 0.25 0.07
  Bacterial 3 0.06 0.06
  Bacterial 4 0.07 0.09
  Bacterial 5 0.02 0.05",
  header=TRUE)
print(cor(cydf$Health,cydf$Disease))
[1] 0.7103517

If you are getting that error, it probably means that either "Health"
or "Disease" or perhaps both have been read in as a factor. To test
this:

is.factor(cydf$Health)
[1] FALSE
> is.factor(cydf$Disease)
[1] FALSE

If either of these returns TRUE, that is almost certainly the problem.

Jim


On Wed, Jul 5, 2017 at 11:27 AM, SEB140004 Student
<chinyi at siswa.um.edu.my> wrote:
> Greeting.
>
> Dear Mr/Mrs/Miss,
>
> OTU ID Health Disease
> Bacterial 1 0.29 0.34
> Bacterial 2 0.25 0.07
> Bacterial 3 0.06 0.06
> Bacterial 4 0.07 0.09
> Bacterial 5 0.02 0.05
> Above show the first 6 data sets, may I ask that the reason of R show the
> error like "Error in cor(data) : 'x' must be numeric" ? And how to solve
> it? Besides, isn't this data can conduct correlation matrix?
>
> Moreover, isn't this data sets can be plot into network? If can, which
> package should I use?
>
> Thank you.
>
> Best regards,
> Kang Chin Yi
>
>         [[alternative HTML version deleted]]
>
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