Hello,
I am receiving an error when trying to build a transcript database using the makeTranscriptDbFromUCSC command. Specifically, when I input the paramaters for hg38 as so:
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hg38.tx<-makeTranscriptDbFromUCSC(genome="hg38", tablename="refGene")
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I am able to download the refGene table, but then receive the following error:
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Download the refGene table . . . OK
Download the refLink table . . . Error in normArgTable(value, x) : unknown table name 'refLink'
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Upon looking on the hg38 genome browser it appears that the refLink table is still connected to the refGene table in hg38 ( I checked in the table browser), as one would assume it should be, so I don't know why I'm getting this error.
If there is a work around I would appreciate knowing it, Thank you.
Answered. I was able to develop a work around using a different package.