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Greeting. Dear Mr/Mrs/Miss, I want to create a network by using R but I only have a table that contain OTU ID and the abundance value of two samples ONLY. Isn't possible? If can, which package can be used? Greatly appreciated to any suggestions and helps. Thank you. Best regards, Kang Chin Yi [[alternative HTML version deleted]]

Please keep the conversation on the list: Others may be able to help you better than I can. On 2017-07-06 10:38, SEB140004 Student wrote: > Ya. I had successfully got the result. Thank you very much. :) > > Isn't possible for me to obtain the network from the correlation matrix? I know nothing about correlation networks, but by googling I found two R packages, ggraph and corrr, that may be of interest t...

...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, m...

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?

...TRUE, that is almost certainly the problem. Or maybe Chin Yi tried (as it seems) > cor(cydf) Error in cor(cydf) : 'x' must be numeric (with cydf == data): 'OTU' is not numeric. Follow Jim's advice. G?ran > > 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...

...ied (as it seems) > >> cor(cydf) > Error in cor(cydf) : 'x' must be numeric > > (with cydf == data): 'OTU' is not numeric. > > Follow Jim's advice. > > G?ran > > >> >> 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 >>...