User: Sanches

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Sanches0
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Posts by Sanches

<prev • 25 results • page 1 of 3 • next >
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Comment: C: Treat Method - number of DE genes
... My mistake. You are right. Thanks again. ...
written 8 weeks ago by Sanches0
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Comment: C: Treat Method - number of DE genes
... Thanks, Steve. I will do that. ...
written 8 weeks ago by Sanches0
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Comment: C: Treat Method - number of DE genes
... Dear Gordon,  I just edited this post. Is it possible you help me to understand my further question? Thanks in advance ...
written 8 weeks ago by Sanches0
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Comment: C: Treat Method - number of DE genes
... Dear Gordon,  I just edited this post. Is it possible you help me to understand my further question? Thanks in advance ...
written 8 weeks ago by Sanches0
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Comment: C: Volcano Plot after using Treat Function
... I wanted to use this code to access treat.lfc and p.value column. Thus, I need to change the old code to tfit[,20] or tfit[,19] to access it. But it s not working.    ...
written 8 weeks ago by Sanches0
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Comment: C: Volcano Plot after using Treat Function
... Dear Gordon,  Thanks for your reply.  I asked it because I got the following error message after run Volcano plot(). I used the above script. I do not know the reason for it. Thanks again. And I ran the eBayes. volcanoplot(tfit,coef=1) Error in volcanoplot(tfit, coef = 1) :    No B-statistics fou ...
written 8 weeks ago by Sanches0
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Volcano Plot after using Treat Function
... Dear all,  Let me ask you all a question.  If I want to create a volcano plot after using the treat function, What kind of parameters should I use?  Of note, in this case, all genes do not rank using Log2fold change. Should I use  xlab="treat.lfc" and ylab=" ? " . Could anyone please help me? Tha ...
volcano plot parameters written 9 weeks ago by Sanches0 • updated 8 weeks ago by Gordon Smyth32k
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Comment: C: TREAT function - how to interpret the result
... Dear Gordon,  Thanks for your reply.  You have just helped me to clarify the result in mine mind.   Thanks ...
written 9 weeks ago by Sanches0
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TREAT function - how to interpret the result
... Hello everyone,  I am so sorry for asking help for a basic issue. So, I have used TREAT function to test for the differential expression of genes.  For example, is it correct to use logFC to compare the relative expression between ADAM8 and SLC25A27? As you can see below,  ADAM8  is the ranked but ...
limma treat written 9 weeks ago by Sanches0 • updated 8 weeks ago by Gordon Smyth32k
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Comment: C: Treat Method - number of DE genes
... Thanks. I will follow your advice. ...
written 9 weeks ago by Sanches0

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