Network_analysis.R co_occurrence_network function error

RichieJu520 / Co-occurrence_Network_Analysis

R and python scripts for correlation-based network analysis

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Network_analysis.R co_occurrence_network function error #2

Open iadamo1 opened 5 years ago

iadamo1 commented 5 years ago

Hi,

thanks a lot for this complete scripts! I am actually trying to run the script with your example data but in pattern<-co_occurrence_network(Abu,0.6,0.01) I get this error:

Error in V<-(*tmp*, value = *vtmp*) : invalid indexing

Could it be because the variables in NW.txt at one point are called New.referenceOTU? can I ask you what New.referenceOTU is for?

thanks a lot!

farzadaslani commented 5 years ago

Hi. I am facing the same error. I would appreciate it if you could let us know how to fix it. Regards Farzad

iadamo1 commented 5 years ago

Hi, just run again the pairwise_correlations.R and once the function is defined it will work! very simple in the end!

slvrshot commented 5 years ago

Hi, just run again the pairwise_correlations.R and once the function is defined it will work! very simple in the end!

Can you share your code? I am trying to get the pairwise_correlations but it is not working. Are you supposed to run the network_analysis.R first then the pairwise_correlations.R. I am confused....the code does not go into details.

najouamghazli commented 4 years ago

I don't know if you still need this, but I got the same error and got to resolve it by deleting the content of the first cell on my table

My table looked like this:

OTU	35	36	37	38	39
1	2662	1758	29988	39457	10562
2	54163	59711	32443	41438	11348

While it should normally looklike this:

	35	36	37	38	39
1	2662	1758	29988	39457	10562
2	54163	59711	32443	41438	11348

Hope it helps