Showing : ebayes • reset
5
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4
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305
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Limma outputs different results for same sample?
topTable MicroarrayData ebayes limma Microarray
7 months ago snijesh • 0
0
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5
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248
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eBayes options and decideTests method
limma eBayes decideTests topTable
updated 19 months ago by 43k • written 19 months ago by • 0
0
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6
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406
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eBayes(fit_object, trend = T) gives: Error in fitFDist(var, df1 = df, covariate = covariate) : NA covariate values not allowed
limma eBayes
updated 2.5 years ago by 43k • written 2.5 years ago by ▴ 50
3
votes
1
reply
487
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Limma without eBayes, is it indistunguishable from Ordinary Least Square?
Limma ebayes bayesian ls
updated 2.9 years ago by 43k • written 2.9 years ago by ▴ 10
1
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7
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675
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model.matrix from GDS data
model.matrix lmFit eBayes GEOquery limma
3.6 years ago darthratus • 0
1
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2
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748
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Limma Ebayes on SILAC data
ebayes limma bioconductor
updated 3.9 years ago by 43k • written 3.9 years ago by ▴ 10
0
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6
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1.0k
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Error in last step of Limma analysis (eBayes)
ebayes limma
3.9 years ago peirinl • 0
1
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3
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980
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Error from eBayes in limma package
eBayes limma error
updated 4.1 years ago by 58k • written 4.1 years ago by • 0
2
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2
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878
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Can one get LSMeans and expression confidence intervals from limma and voom?
ebayes limma voom
4.5 years ago bag59 • 0
1
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2
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1.1k
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error in Limma analysis - estimated df (df.0) for prior value of variance (s2.post) is Inf
limma ebayes
updated 4.7 years ago by 43k • written 4.7 years ago by • 0
1
vote
1
reply
590
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Limma ebayes function error without any messages
limma ebayes
updated 5.9 years ago by ★ 27k • written 5.9 years ago by ▴ 40
3
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3
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1.1k
views
Sub : Limma ebayes
limma ebayes statistical inference
updated 6.1 years ago by 43k • written 6.1 years ago by • 0
0
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1
reply
858
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LmFit and eBayes on merged ESET giving errors
limma eset error ebayes
updated 6.2 years ago by 58k • written 6.2 years ago by ▴ 20
6
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5
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1.1k
views
Limma ebayes returns a list with Affy pd.hugene.2.0.st arrays
ebayes expression affymetrix pd.hugene.2.0.st limma
updated 6.7 years ago by 43k • written 6.7 years ago by ▴ 200
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Answer: Error in makeTxDbFromGFF(txomeInfo$gtf) by Michael Love 34k
I see that tximeta found a linked transcriptome. Can you show this part of your code as well? How did you create the `linkedTxome`?
Comment: EdgeR, tumor normal pair, no replicatie but multiple patients, to focus on indi by Gordon Smyth 43k
You need to start by doing an ordinary paired analysis.
Comment: Recalculated abundance data output table with DEseq2 by Michael Love 34k
Yes, DESeq() then results(). When you print the table it will say MLE. No we don’t have a function to do that.
Comment: Recalculated abundance data output table with DEseq2 by michael.morash • 0
Thanks for getting back to me so quickly. The final comparison we are looking to report are the effects of filtering out low count genes us…
Comment: EdgeR, tumor normal pair, no replicatie but multiple patients, to focus on indi by Field -Ye • 0
Hi Professor Smyth, Thank you for pointing me to your previous publication. I went through the verbal part and found you did pursue the DG…
Votes
Answer: Degust: what normalization method does it use
Answer: ylim and xlim in Enhanced Volcano
Answer: EdgeR, tumor normal pair, no replicatie but multiple patients, to focus on indi
Error in .rowNamesDF<-(x, value = value) :duplicate row.names are not allowed DESeq2
Comment: How to build a GRangesList where each GRanges element is a CDS coordinate of gen
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