Bioconductor Mdsplot

Showing : mdsplot • reset

2

votes

8

replies

5.2k

views

edgeR plotmds differential gene expression MDS mdsplot

updated 6.7 years ago by Gordon Smyth 52k • written 6.7 years ago by ilovesuperheroes1993 • 0

0

votes

3

replies

1.9k

views

MDSplot geneexpression insilicomerging

updated 9.4 years ago by James W. MacDonald 68k • written 9.4 years ago by Shamim Sarhadi ▴ 20

2 results • Page 1 of 1

Recent ...

Replies

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…

Votes

Can NanoString data be analyzed using DESeq2?

Awards • All