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Coverting Embl Format To Bed Format

I have an embl file of my annotated genome. How can I convert it to bed format so I can use it in Bed tools? Will I get the output like that in the converted bed file from embl? e.g.

Gene     start      end 
BRCA      120       279
BRCB      390       578
CDRA      890       1176
format
• 4,446 views • link
updated by Istvan Albert Istvan Albert • written by bioinfo bioinfo

1 answer

Try ReadSeq http://www.ebi.ac.uk/cgi-bin/readseq.cgi

EDIT:

indeed ReadSeq does not convert to BED. Well then just convert to GFF then convert that to BED, see this perhaps

http://www.biostars.org/post/show/2/how-do-i-convert-from-bed-format-to-gff-format/

• 40 views • link
written by Istvan Albert Istvan Albert

had a look before but there is no option to convert in Bed format

• 0 views • link
written by bioinfo bioinfo

thanks..I am going through it

• 0 views • link
written by bioinfo bioinfo

I managed to convert my embl format to C++ text format..now I m trying to convert that to bed

• 0 views • link
written by bioinfo bioinfo

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