est2genome output to genbank format?

Peter Rice pmr at
Thu Mar 13 14:14:54 UTC 2003

Wiepert, Mathieu wrote:
> Is it possible to have est2genome give output in genbank format (or ensembl),
 > with exons and introns annotated as features on the genome sequence?

Soon ... EMBOSS reports can be written as GFF or EMBL feature tables.

All you need is a change to est2genome to write an EMBOSS report. The 
main reason est2genome has not been converted yet is the need to also 
write an alignment report and to preserve the original format for users 
who already parse it into something else.

High on the list of things to do ... especially now someone has asked 
for it :-)

Expect something in the next couple of months.

As for other parsers for est2genome .... there are parsers at the Sanger 
Institute for their annotation pipelines. You could try contacting them 
for help and advice.


Peter Rice

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