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Old 10-31-2014, 06:51 AM   #1
akp1d12
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Default .embl to NCBI .tbl format

i have an annotated genome in .embl format and would like to extract the feature table from this so i can use it for submission to NCBI via tbl2asn along with a genome fast file.
Does anyone know a way to parse feature tables from .embl files, i'm really stuck here.
The bacterium i am working on has no reference genome, so it has unfortunately fallen to me to submit one.
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Old 11-01-2014, 04:02 AM   #2
maubp
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BioPerl, Biopython, EMBOSS etc all understand and can parse EMBL format, so could at least convert it into GenBank format from which you might have more options?
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Old 11-01-2014, 04:34 AM   #3
GenoMax
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Once you get to the GenBank format as Peter suggested this should help with remainder of the task: http://seqanswers.com/forums/showthread.php?t=19975
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