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How to convert .gff3 to .gff

Please tell me how to convert .gff3 to .gff. I would like to use Gff2GeneTable function in clusterProfiler.

sequence
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updated by Biostar Biostar • written by nakanomasayuki265 • nakanomasayuki265

1 answer

Normally a gff3 file and a gff file should be indistinguishable to most parsers (in fact often a gff file is a gff3 file, but not always), do you get an error in Gff2GeneTable when you load your gff file?

Have a look at what a gff3 validator tool such as this one tells you about your gff file, if it doesn't complain then it's a valid gff3 file.

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written by Philipp Bayer Philipp Bayer

I'm having the same issue as well. I have a gff3 output from Blast2GO, and it fails with the online validator tool that you mentioned. I was also wondering how to convert it to a gff, instead of a gff3, so that I can use the GFF2GeneTable function mentioned by nakanomasayuki.

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written by emily.giroux.science • emily.giroux.science

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