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GFF3 to BED using Python

how to transform GFF3 format to BED format using Python? and how to convert a gene features column from GFF3 format to BED format using Python? I tried this line but did not work:

$GFF2BED <foo.gff3

Any help is highly appreciated

gff3 bed python
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written by onemore100iq • onemore100iq

of course because it did not get the expected BED format, is this not enough reason to call it "did not work"?

• 1 views • link
written by onemore100iq • onemore100iq

It is fine to call it "did not work". But you have to provide examples of:

  • how you input looks like
  • how the output looks like
  • how the expected output should look like

Without these information we are not able to understand what "did not work" nor we can provide a solution.

fin swimmer

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written by finswimmer finswimmer

I forgot to thank you for directing me regarding how to ask a question. But I noticed that there are many other questions are asked and have same format as my question and yet got right away help/hint/ guidance/website link i.e. non of them was treated the same way as my question where you asked me questions that investigated my question instead of helping me although that I asked one straightforward question like many other questions format where they did not provide input nor output nor expected output !!!!!!!!! Thank you anyway for your great help

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written by onemore100iq • onemore100iq

Do not take it personally. Finswimmer is asking for further information to improve the question thread. This makes it easier for us to help you.

But, perhaps more importantly, this forum isn’t just about the question when you ask it - it is a repository of knowledge for the future, so the post should ideally be clearly organised so that people who have the same issue in future can find the solution quickly.

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written by Joe Joe

Please share your solution.

• 1 views • link
written by zx8754 zx8754

1 answer

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written by aliyamanasa23 • aliyamanasa23

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