Hi I am trying to understand what happen with the heatmap.2 code that it
used to work (last used in October 2015). I am able to get a heatmap but my
colour key doesn't come up and instead I get an error in all my files the
used to work. Does anyone has any idea of what could have changed? or how
to
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
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
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
Hi,
I want to compare DESeq vs DESeq2 and I am getting different number of DEGs
which I will expect to be normal. However, when I compare the 149 genes ID
that I get with DESeq with the 869 from DESeq2 there are only ~10 genes
that are in common which I donât understand (using FDR <0.05 for bot
Hi,
I am trying to use DESeq2 but I having troubles determining the reduced
formula for the nbinomLRT. I will like to compare the results with the
DEGs I got by nbinomGLMTest using DESeq.
With DESeq I did the following:
co=read.table("C_LPS_PBS_1h_DS.txt",header=T)
ind=c(1,2,4,5,1,3,4,5)
trt=c(
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