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Old 08-11-2011, 10:02 AM   #1
Location: USA

Join Date: Jun 2011
Posts: 44
Default exonsBy function in GenomicRanges package

Hi All,
I am working with canFam2 data. The commands used are:
canFamrefGene <- makeTranscriptDbFromBiomart(biomart="ensembl",dataset="cfamiliaris_gene_ensembl")
exonRangesList <- exonsBy(canFamrefGene, "gene")

the data is not sorted per chromosome in the exonRangesList object. This is later giving me problems with countOverlaps function.
Can someone please help.
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