I use cufflinks to make a counts table with geneID(NCBI), but I want to have a counts table with geneSymbol. And my mm10.gtf haven't a GeneSymbol column. As you know, each GeneSymbol related to several GeneID.
In my way, I make a counts table with GeneID, and use R-Mygene TO converse the column of GeneID to GeneSymbol, here is my first Question:
Could I just merge the same GeneSymbol rows? (add the counts number up)
My second question is:
If you meet these, what would you do? And where can I download the "right" gtf file?
1 answer
You can grab the respective files from Ensembl for your organism of interest and re-run the analysis. They contain Ensembl id's and the gene names as well.
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written
by
Sukhi Singh
I don't know that if it's true, "each GeneSymbol related to several GeneID..."
How does your counts table look like?
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