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Extract Certain Info From Multiple Files In Genbank Format

hi,

i'm new in bioinformatics and python. my first project is to extract /gene, /product, /locustag and /ECnumber qualifiers info from Genbank file. i need the info for all these qualifiers only and save them in 1 specific file. is there any specific script to do this? thanks..

python
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updated by Redse • Redse • written by Redse • Redse

Hi,

thanks guys...will look into those links right now..

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written by Redse • Redse

3 answers

This should be easily doable using BioPython. I have not used it much myself, but take a look at the examples here.

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written by Lars Juhl Jensen Lars Juhl Jensen

I found tutorial about biopython and Genbank at http://www2.warwick.ac.uk/fac/sci/moac/students/peter_cock/python/genbank/

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written by Pierre Lindenbaum Pierre Lindenbaum

Ha, I think we posted answers with the exact same links within seconds of each other :)

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written by Lars Juhl Jensen Lars Juhl Jensen

I was the first one ! ;-) I was the first one ! I was the first one ! Vote for me ! Vote for me ! Vote for me ! :-))

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written by Pierre Lindenbaum Pierre Lindenbaum

You can definitely use the BioPython approach, but if you want to take a look a "raw" python way check this out.

You can modify the code to fit your needs.

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updated by Ram Ram • written by Paulo Nuin Paulo Nuin

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