[R] differential gene expression

Duncan Murdoch murdoch@dunc@n @end|ng |rom gm@||@com
Sun Aug 22 01:21:02 CEST 2021

On 21/08/2021 6:55 p.m., Anas Jamshed wrote:
> I have this data:
> https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE162562&fbclid=IwAR0iZQhttG8HzGhFIIMWbFgNszQrVDgiyVChYzQ_ypCx_d-1pn_tm7STjGs
> and I want to compare:
> healthy vs Mild healthy vs Highly exposed seronegative (ishgl) Healthy vs
> Asymptomatic covid19 patient healthy vs Highly exposed seronegative (non
> ishgl)  from this data.
> I started like :
> gset <- getGEO("GSE162562", GSEMatrix =TRUE, getGPL=FALSE)
> gset
> sampleinfo = pData(gset[[1]])[, 1:3]
> print(sampleinfo)
> but i need help to proceed futher

I think you're asking in the wrong place.  You need statistical help, 
not R help.  Once you know what you want to do, ask here about how to do 
it; in the meantime, look for statistical help.  Some people suggest 
stats.stackexchange.com for that; I haven't read it enough to know if it 
is useful or not.  In many cases, talking to a local expert is the best 

Duncan Murdoch

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