Bioconductor Quantsmooth

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quantsmooth

updated 10.9 years ago by Jan Oosting ▴ 20 • written 10.9 years ago by bob.stephens.2005 • 0

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quantsmooth quantsmooth

13.9 years ago Srinivas Srikanth ▴ 70

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ideogram quantsmooth GenomeGraphs ideogram quantsmooth GenomeGraphs

14.1 years ago Pete Shepard ▴ 240

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Clustering annotate quantsmooth Clustering annotate quantsmooth

updated 14.4 years ago by Oosting, J. PATH ▴ 550 • written 14.4 years ago by Nandini B ▴ 30

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geneplotter affy affyio beadarray quantsmooth beadarraySNP geneplotter affy affyio

updated 17.9 years ago by Matt Ritchie ▴ 460 • written 17.9 years ago by Elizabeth McClellan ▴ 10

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Biobase annotate affy affyio beadarray quantsmooth beadarraySNP lumi Biobase annotate

18.1 years ago Johnstone, Alice ▴ 410

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geneplotter affy affyio beadarray quantsmooth beadarraySNP geneplotter affy affyio

updated 18.1 years ago by Mark Dunning ▴ 320 • written 18.1 years ago by Krys Kelly ▴ 270

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1.7k

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geneplotter affy affyio beadarray quantsmooth beadarraySNP geneplotter affy affyio

updated 18.1 years ago by Mark Dunning ▴ 320 • written 18.1 years ago by Johnstone, Alice ▴ 410

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geneplotter affy affyio beadarray quantsmooth beadarraySNP geneplotter affy affyio

updated 18.1 years ago by Mike Smith ▴ 40 • written 18.1 years ago by Krys Kelly ▴ 270

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1.4k

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Microarray Annotation geneplotter affy affyio beadarray quantsmooth beadarraySNP affy

updated 18.2 years ago by Matt Ritchie ▴ 460 • written 18.2 years ago by Keith James ▴ 10

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Answer: ROAST compare results with complex design by James W. MacDonald 68k

You are specifying that the last column of your design should be used as the contrast. You should instead use `contrast[,1]`, which will us…

Comment: How to account for solvent controls in DESeq2 when comparing follicular vs lutea by James W. MacDonald 68k

Yes. You can infer that by figuring out what each coefficient measures. Here is your design matrix: ``` > targets ID Name phase G…

Comment: How to account for solvent controls in DESeq2 when comparing follicular vs lutea by snijesh ▴ 200

I would like to clarify whether the command `res <- results(dds, name = "phaseLP.conditionTreated")` is the correct approach to generate …

Comment: How to account for solvent controls in DESeq2 when comparing follicular vs lutea by James W. MacDonald 68k

Not sure I understand. You ask how to do something and then show how one would do so.

Comment: DiffBind getting Fold values of near 0 by littlefishes20 ▴ 10

Same issues. All peaks return to a fold near 0, although they are significant when visualizing in IGV. Please find the MAplot and volcanoPl…

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How to account for solvent controls in DESeq2 when comparing follicular vs luteal phase?

Answer: How to account for solvent controls in DESeq2 when comparing follicular vs lutea

Comment: Using DESeq2 on single cell RNA Seq data of same cell type but different conditi

Can NanoString data be analyzed using DESeq2?

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