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  • gff3,gtf to gff

    For a specific software I require to convert gene annotations which are in gff3 and gtf format to gff format. Any scripts/tools to do do would be helpful

  • #2
    Did you try using the gff3 or gtf files directly? Both gff3 and gtf should be "gff-compliant", they are just special cases of gff with more information. Getting rid of this extra information by keeping only the 8 first columns of the files will produce a minimal gff format (for instance using "cut -f1-8 file.gtf > file.gff") but you may want to keep that information somehow.
    More information would be helpful, like the name of the software, a few lines of the format you have, the format you want, the error message you get when trying to use gtf, etc.

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    • #3
      Thanks steven this information helps! Also I came across this script that converts gtf to gff2

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