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gff3 to gtf

Hi guys,

I need to convert a gff3 file to gtf to use at tophat. I tried to convert using the gffread ( came with Cufflinks), but it didn't work. Could anyone help me with this?

next-gen gff gtf
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updated by grant.hovhannisyan grant.hovhannisyan • written by luanabarbos • luanabarbos

Which species is this data in GFF3 format for? I wonder if a GTF is not already available out there...

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written by Denise CS Denise CS

2 answers

Have a look at this older post. There also seems to be a Galaxy tool for this.

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written by Jean-Karim Heriche Jean-Karim Heriche

Gffread utility from Cufflinks is what you need. What was your command line for it that did not work?

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written by grant.hovhannisyan grant.hovhannisyan

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