[Bioperl-l] ESTs in EST format

Jason Stajich jason at bioperl.org
Wed Jul 4 13:52:59 EDT 2007

Currently we don't support this format as far as I know it isn't a  
published standard nor is it a format that you NCBI distributes this  
data in flat format for (i.e. genbank dumps).

Is there any reason why you can't get what you need from the GenBank  

On Jul 4, 2007, at 10:11 AM, Alberto Davila wrote:

> Dear All,
> I am trying to get all ESTs from a given species (eg: Trypanosoma
> brucei) from Genbank in EST format (eg:
> http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi? 
> db=nucest&id=10280980)...
> while using Entrez I can "display" individual EST entries in EST  
> format,
> this "EST format" is not an option in the main "display" menu for  
> batch
> download ...
> I dont see the EST format listed
> (http://www.bioperl.org/wiki/Sequence_formats) among the ones that  
> SeqIO
> deal with, so wonder there would another BioPerl module to do  
> this ? any
> tips, would be greatly appreciated ;-)
> Kindest regards, Alberto
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Jason Stajich
jason at bioperl.org

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