User: Lin

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Lin40
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2 months, 2 weeks ago
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3 months, 3 weeks ago
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Posts by Lin

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Comment: C: WGCNA: relate modules to binary trait
... I used the CEMiTool function for filtering! I was just thinking that the end result with ~ 5000 genes is good, so I did not change the filter value. What do you think about the plot of mean and variance, it does not look like I need the apply_vst parameter? And would you rather use pearson or spear ...
written 3 months ago by Lin40
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Comment: C: WGCNA: relate modules to binary trait
... Thanks for your answer Pedro! Do you think I should use a more stringent parameter, because I thought that ~ 5000 genes would be a good sample? I will attach a plot from the mean& variance [here][1]. I think the data shows no straight line, but what could I read further from this/ what would yo ...
written 3 months ago by Lin40
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Comment: C: WGCNA: relate modules to binary trait
... Thank you for your answer! The DE analysis was already done. There were some differences in for example immune-system related pathways, what makes sense regarding this disease. The most differences were observed for the 3. timepoint, what was the reason why I started to use this here. I wanted t ...
written 3 months ago by Lin40
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WGCNA: relate modules to binary trait
... Hey! I am going through the very helpful WGCNA tutorials and constructed a co-expression network, but now I am stuck with further steps and interpretation of my modules. At first some information regarding my data and progress:  I have 60 samples from humans (assigned to 2 groups a 30 people) ...
wgcna R module eigengene binary trait written 3 months ago by Lin40 • updated 3 months ago by pedrostrusso30

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