Question: Regarding WGCNA gene expression data
0
gravatar for sana777munquad
11 days ago by
sana777munquad0 wrote:

Currently I am working on WGCNA, using gene expression data. In WGCNA correlation and p-value is default or we can reset it. I am confused. if i want to reset the correlation & p-value then how to reset it? Plz help me out.

genomic • 84 views
ADD COMMENTlink written 11 days ago by sana777munquad0

Hi, What do you mean correlation? Do you mean correlation gene expression profiles with clinical traits?

ADD REPLYlink written 11 days ago by modarzi90

I have a matrix of RNA-seq data of genes vs samples. I want to find out co-related genes from WGCNA. I am not using any clinical trait.

ADD REPLYlink written 11 days ago by sana777munquad0

ok. you mean that you would like to change correlation method. in adjacency() function you can change the type of correlation method. default is the Pearson correlation coefficient.

ADD REPLYlink written 11 days ago by modarzi90

No I dont want to change the method of correlation.I want to change the correlation value for gene expression prediction like if I will get 0.7 then we can say that it is good result. one more thing how can I edit the p-value in code.like someone taken 0.05 and others are taking 0.01.

ADD REPLYlink written 11 days ago by sana777munquad0
1

If you want help, please show all of your analysis steps and also paste a sample of your data here. Unfortunately, textual descriptions are often unhelpful.

ADD REPLYlink written 11 days ago by Kevin Blighe51k
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