[R] How to make a proper use of blocking in limma using voom

2014-04-12 Thread Catalina Aguilar Hurtado
ta works because I used DESeq and got around 200 differentially expressed genes FDR < 0.05. >From: Steve Lianoglou >Date: Mon, Apr 7, 2014 at 5:09 PM >Subject: Re: [R] How to make a proper use of blocking in limma using >voom >To: Catalina Aguilar Hurtado >Cc: r help

[R] How to make a proper use of blocking in limma using voom

2014-04-10 Thread Catalina Aguilar Hurtado
Hi Steve, Thanks for you reply. I have tried what you suggested and checked the limma guide sessions. Now I am getting the results from only one treatment which is great but the problem is all my adjusted Pvalues (adj.P.Val) are >0.05. Don't really know how to solve this, I know my data works be

Re: [R] How to make a proper use of blocking in limma using voom

2014-04-07 Thread Steve Lianoglou
Hi, This is a bioconductor-related question so please post any follow up questions on that mailing list. You can sign up to that list here: https://stat.ethz.ch/mailman/listinfo/bioconductor Comments in line: On Sun, Apr 6, 2014 at 10:41 PM, Catalina Aguilar Hurtado wrote: > Hi all, > > I hav

[R] How to make a proper use of blocking in limma using voom

2014-04-06 Thread Catalina Aguilar Hurtado
Hi all, I have a RNAseq data to analyse were I have a control and a one treatment for different individuals. I need to block the effects of the individual, but I am having several troubles to get the data that I need. I am using voom because my data is very heterogeneous and voom seams to do a goo