Question: binary phenotype or discrete traits in wgcna analysis
6
gravatar for l0o0
6.4 years ago by
l0o0210
China
l0o0210 wrote:

In WGCNA R package how do you correlate identified co-expression modules with binary phenotype data ? All the papers and tutorial material I have seen works with quantitative data. Does psuedo numbering traits ( 1 for control and 2 for disease sample) make any sense or are there any other options ?

In another case, i have different tissue, the information all I have is that these samples are from different tissue. How do I apply these data to WGCNA?

wgcna rna-seq co-expression R • 3.0k views
ADD COMMENTlink modified 9 weeks ago by RamRS30k • written 6.4 years ago by l0o0210

Any luck or progress on this?

ADD REPLYlink written 3.5 years ago by O.rka220
0
gravatar for Kevin Blighe
9 weeks ago by
Kevin Blighe66k
Kevin Blighe66k wrote:

Just encode them as numerical 0 and 1. Or, if you want to do something more elaborate, build a binary logistic regression model:

glm(BinaryTrait ~ Module1, ...)

Kevin

ADD COMMENTlink written 9 weeks ago by Kevin Blighe66k
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