Bioconductor Des

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619

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DESeq2 DES

updated 3.4 years ago by Michael Love 42k • written 3.4 years ago by heikki.sarin ▴ 10

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511

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DESeq2 des

updated 17 months ago by Michael Love 42k • written 18 months ago by Devin • 0

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569

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DES DESIGN

updated 19 months ago by Michael Love 42k • written 19 months ago by mike • 0

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393

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DESeq2 RUVSeq RUVseq BatchEffect DES

updated 12 days ago by James W. MacDonald 65k • written 12 days ago by Alexandre • 0

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137

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Des DESeq2

updated 25 days ago by hemantcnaik • 0 • written 25 days ago by Sahar • 0

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229

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DESeq2 DEs

7 weeks ago feather-W • 0

6 results • Page 1 of 1

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Comment: Limma without eBayes, is it indistunguishable from Ordinary Least Square? by Gordon Smyth 50k

Regardless of whether it agrees with `t.test` or not, the formula given in the original question is correct and yours is not. Your formula …

Comment: Limma without eBayes, is it indistunguishable from Ordinary Least Square? by nbay13 • 0

A little late to the party, but I found that using the equation you specified, the p-values are actually slightly off from base R's `t.test…

Comment: Method to find pathways different between 2 groups by Gordon Smyth 50k

sigPathway is another method that does not account for inter-gene correlation and which gives inflated significance, as we showed in our 20…

Answer: error in limma , contrast.matrix Number of rows of contrast matrix must match nu by James W. MacDonald 65k

I doubt you have that many contrasts. I think that is probably the number of rows. What does `dim(fit)` return (and `head(fit$coef)`)?

Answer: Extremely small p-values using Limma for proteomic data by James W. MacDonald 65k

If you fit a cell means model (without an intercept), you will have to construct contrasts using `makeContrasts` and fit them using `contra…

Votes

Answer: error in limma , contrast.matrix Number of rows of contrast matrix must match nu

Answer: Extremely small p-values using Limma for proteomic data

Answer: How to save the DEXSeq results

Answer: minfi support of illumina Infinium methylationEPIC v2.0

Comment: minfi support of illumina Infinium methylationEPIC v2.0

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