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Old 12-26-2018, 03:54 AM   #1
Aye
Junior Member
 
Location: Argentina

Join Date: Dec 2018
Posts: 1
Question Have you had problems with cummeRbund amf GIVZ?

Hello
I am Ayelen Distefano from Argentina. I work with plants, specificaly with Arabidopsis thaliana
I am triyng to analyze my RNAseq data with cummerbund.
My problem is that when I try to obtein the gene model from my gene, I have nothing

If I try with:
<genetrack<-makeGeneRegionTrack(myGene)
#Error in `[.data.frame`(features(object), , featCols) :
# undefined columns selected

I suppoused the problem is that R could not find a genome associated with my data because:

<head(features(myGene))
#[1] feature_id gene_id isoform_id seqnames source type start
#[8] end score strand frame
# 0 rows> (or 0-length row.names)

I have set up my working directory in the cuffdiff folder. Have I to paste another file there? I mean, a file with the reference to my geneome?


I hope you could help me
Thanks you very much
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