Re: [R] DESeq vs DESeq2 different DEGs results

You're on the wrong list. This is more appropriate on the bioconductor mailing list. On Mon, May 5, 2014 at 9:42 AM, Catalina Aguilar Hurtado wrote: > 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 t

[R] DESeq vs DESeq2 different DEGs results

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 don’t understand (using FDR <0.05 for bot

Re: [R] DESeq package install error

On 03/06/2012 02:20 AM, nathalie wrote: HI, I would like to update my DESeq package version on R-2-14 using bioclite() and get this message, could somebody help please? > biocLite("DESeq") BioC_mirror: 'http://www.bioconductor.org' Using R version 2.14, BiocInstaller version 1.2.1. Installing

[R] DESeq package install error

HI, I would like to update my DESeq package version on R-2-14 using bioclite() and get this message, could somebody help please? > biocLite("DESeq") BioC_mirror: 'http://www.bioconductor.org' Using R version 2.14, BiocInstaller version 1.2.1. Installing package(s) 'DESeq' Installing package(s)

Re: [R] DESeq

This is one of those quirky R moments, try something like as.integer(as.character(DATA)). Michael On Mon, Nov 7, 2011 at 4:24 PM, Eric wrote: > Hello, > > I have RNAseq data, which I am trying to analyze with DESeq. My file (tab > delimited .txt) appears to be correct: > >>head(myfile) >      

[R] DESeq

Hello, I have RNAseq data, which I am trying to analyze with DESeq. My file (tab delimited .txt) appears to be correct: >head(myfile) VZ_w13 VZ_w14a VZ_w14b VZ_w15a VZ_w15b VZ_w16a ENSG0253101 0 0 0 0 0 0 ENSG0223972 0