Bioconductor VOOM

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170

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limma RNASeq voom

written 15 days ago by taur.vil • 0

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195

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Voom Limma WGCNA

4 weeks ago Gimena • 0

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563

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DEG edgeR limma voom filterByExpr

updated 5 months ago by Gordon Smyth 50k • written 5 months ago by annikagable • 0

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812

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edgeR limma voom RNASeq muscat

updated 5 months ago by Gordon Smyth 50k • written 5 months ago by annikagable • 0

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536

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stats r RNASeqData limma voom

5 months ago pl23 • 0

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612

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voom RNASeq limma

5 months ago Tyler Sagendorf ▴ 10

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709

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voom blocking limma

updated 7 months ago by Gordon Smyth 50k • written 7 months ago by Gerhard Thallinger ▴ 180

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2.7k

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limma edger timecourse without replicate voom

written 7.5 years ago by Camila Orellana ▴ 10

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989

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GSEA voom limma

updated 10 months ago by Gordon Smyth 50k • written 10 months ago by manuelsokolov • 0

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limmaGUI normalization limma voom Normalization

updated 10 months ago by Gordon Smyth 50k • written 10 months ago by manuelsokolov • 0

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461

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RNASeqData limma voom PFS DGE

updated 10 months ago by James W. MacDonald 65k • written 10 months ago by manuelsokolov • 0

11 results • Page 1 of 1

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Comment: Help with running egsea() by Chris • 0

I tried egsea.ma and got this error: gsa = egsea.ma(fit2, vector_group, probe_annotation, contrasts = contrast_matrix, gs.annots = gs.…

Comment: Getting Error in hclust(d, method = method): NA/NaN/Inf in foreign function call by angelathuynh5 • 0

Thank you for your response. To clarify, the process of making a heatmap performs rowscaling so it takes the value - (mean/std). And to res…

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

The formula given in the original question is correct and yours is not. Your formula isn't even constrained to be between 0 and 1. Here is …

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)`)?

Votes

Answer: confused with tximport counts abundance using salmon input

Answer: Getting Error in hclust(d, method = method): NA/NaN/Inf in foreign function call

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

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Popular Question to Gyan Prakash Mishra ▴ 10