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WGCNA network Analysis

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?

Thanks

wgcna network geo tcga r
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updated by zx8754 zx8754 • written by biotechuos4 • biotechuos4

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?

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written by ATpoint ATpoint

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.

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written by Benn Benn

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.

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written by biotechuos4 • biotechuos4

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.

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written by Kevin Blighe Kevin Blighe

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