Conversion of GFF3 file to ptt format

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3.8 years ago

qstefano ▴ 20

Hello there,

There is a way to convert a GFF3 file to ptt format? Are there any R packages or similar?

Thanks everyone.

RNA-Seq alignment R sequencing next-gen • 1.7k views

ADD COMMENT • link 3.8 years ago by qstefano ▴ 20

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if you have a possibility to obtain gbk or gb (not gff3), then use the following script: https://github.com/sgivan/gb2ptt or so: perl GBKtoPTT.pl < [yourgbkfile.gbk] > [yourdesiredoutputfile.ptt]

ADD REPLY • link 3.8 years ago by mewgia • 0

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I've read something about that. There's a way to download automatically ptt file by acession ID? Or eventually gbk?

ADD REPLY • link 3.8 years ago by qstefano ▴ 20

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actually i don't know, but when i had the same problem, i downloaded the genome in .gbk and converted it to .ptt using the script i mentioned.

ADD REPLY • link 3.8 years ago by mewgia • 0

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I've noticed that using .gbff (modern version of gbk) the script works anyway.

ADD REPLY • link 3.8 years ago by qstefano ▴ 20

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