User: Lucas Santana dos Santos

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7 years, 9 months ago
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Posts by Lucas Santana dos Santos

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Comment: C: Important: Help with eBayes in AgiMicrRna and on how to find differentially expr
... Karthik, How does your data looks like? How many arrays do you have? I jumped in the middle of the thread, and did not get a description of you data. Lucas On Feb 6, 2012, at 9:33 AM, Sean Davis wrote: > On Mon, Feb 6, 2012 at 9:26 AM, Lucas Santana dos Santos > wrote: >> Hi Karthik ...
written 7.8 years ago by Lucas Santana dos Santos60
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Answer: A: Important: Help with eBayes in AgiMicrRna and on how to find differentially expr
... Hi Karthik, Since you have two groups, if could use a simple t-test and correct the p-values for multiple testing using Benjamin-hochberg. Besides the t-test, I would suggest to you the sam.r package to find the differentially expressed genes. I have never use BGX with agilent, so I am not sure tha ...
written 7.8 years ago by Lucas Santana dos Santos60
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Answer: A: readBGX - sigma2.1 error
... Dear Group, I just run BGX without a problem. I could analyze the data... Now I want to run BGmix, however I got this error: > readBGX('/Users/lucas/run.2') Read 178264 items Error in file(file, "r") : cannot open the connection In addition: Warning message: In file(file, "r") : cannot ope ...
written 10.5 years ago by Lucas Santana dos Santos60
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readBGX - sigma2.1 error
... Dear Group, I just run BGX without a problem. I could analyze the data... Now I want to run BGmix, however I got this error: > readBGX('/Users/lucas/run.2') Read 178264 items Error in file(file, "r") : cannot open the connection In addition: Warning message: In file(file, "r") : cannot op ...
bgx bgmix written 10.5 years ago by Lucas Santana dos Santos60
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Comment: C: Error in ebayes: No residual degrees of freedom in linear model fits
... Dear Wolfgang, I will try to use BGX in order to identify differentially expressed genes. Seems to me it can detect differentially expressed genes without replicates (it is worse than Limma with replicates).. Also I will follow your suggestion to ask a more specific question about my data. My main ...
written 10.5 years ago by Lucas Santana dos Santos60
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Error in ebayes: No residual degrees of freedom in linear model fits
... Dear Group, I am trying to find differential expressed genes using Limma, however I got the following error when I try eBayes: Error in ebayes(fit = fit, proportion = proportion, stdev.coef.lim = stdev.coef.lim) : No residual degrees of freedom in linear model fits My dataset consists of 8 arrays ...
limma written 10.5 years ago by Lucas Santana dos Santos60 • updated 10.5 years ago by Wolfgang Huber13k

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