Question: WGCNA network Analysis
gravatar for biotechuos4
5 weeks ago by
biotechuos40 wrote:

Hi Everyone,

I'm using WGCNA package in R. Before going in depth I'm a little confused about the nature of the data.

I want to ask if I am using GEO data what could be the nature of the data or TCGA data?

Can anyone please clarify this?


R tcga network wgcna geo • 165 views
ADD COMMENTlink modified 5 weeks ago by zx87546.8k • written 5 weeks ago by biotechuos40

Your question is unclear. Both GEO and TCGA contain next-generation-sequencing (mostly Illumina) and array-based data, such as whole-genome-sequencing, RNA-seq, methylation profiles, ChIP-seq etc. What do you mean by "nature" of the data?

ADD REPLYlink modified 5 weeks ago • written 5 weeks ago by ATpoint14k

Hi, what do you exactly mean with "nature of the data"? Do you mean if they are numerical? Please elaborate a bit more, as now for me it is not clear what you are asking.

ADD REPLYlink written 5 weeks ago by b.nota6.4k

Thank you very much for your reply. Actually, I want to know about the trait data, weight and also the raw input for the analysis. I was reading tutorials linked to WGCNA package and came to know about these terms.

ADD REPLYlink written 5 weeks ago by biotechuos40

You should just follow the tutorials, line by line, and then try to understand on your own. If you still have questions, then come back.

ADD REPLYlink written 5 weeks ago by Kevin Blighe39k
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