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GFF3 cannot be recognized #240
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Dear @sanyalab IsoQuant does support both GTF and GFF, but not BED. Could you send me the entire isoquant.log file? Best |
Hi Andrey, I actually went ahead and converted the GFF3 to a geneDB format using gffutils. This would be a preprocessing step. It seems to be running fine now. The isoquant.log file is 152MB in size and I cannot upload the same. But here are the first 10 lines and the last 10
LAST:
Its not recognizing the GFF3 file |
Thanks a lot! I will add GFF3 support to the internal checker. |
GFF3 should work in IsoQuant 3.6.1 without warnings. |
Hi,
The tool says that it can work with GFF3. But it only works with GTF. Can we get GFF3 support?
Error I get when I provide GFF3 formatted file with the
--genedb
optionDo you consume the gene annotations in GTF format or Bed12 format? Is it ok to provide a bed12 file directly?
Thanks
Abhijit
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