Question: How To Download Bacterial Genomes And Cds By Genus From Embl
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gravatar for parinitaujoodha
5.1 years ago by
Mauritius
parinitaujoodha20 wrote:

Hello,

Could anyone please direct me an ftp service where I can download bacterial embl files please? I need only the EMBL files. It would be great if the download is done by genus.

All ideas about the website and implementation are welcome

Thank you.

bioinformatics ensembl • 1.5k views
ADD COMMENTlink modified 5.0 years ago by Biostar ♦♦ 20 • written 5.1 years ago by parinitaujoodha20

Please be a bit more specific. What kind of EMBL files? Whole genome sequences? For any bacteria? Or all sequence records for a given organism? Or for all bacteria?

ADD REPLYlink written 5.1 years ago by Neilfws48k

Hi, embl files for bacterial genomes including their CDS and their whole genomes as well. Like the one provided in Ensembl. However, Ensembl does not store the embl files as an ftp service. Thanks. Yes it would be nice if there is any ftp service that stores embl files for all bacteria by their genus. Any suggestions?

ADD REPLYlink written 5.1 years ago by parinitaujoodha20

months ago I began to learn to use Perl API to fetch bacteria gene information for my organism, I think they might have some solutions. following is a link for the API, http://www.ebi.ac.uk/training/online/outline_print/9021/all

http://www.ebi.ac.uk/training/online/course/ensembl-filmed-api-workshop/how-take-course

you may ask your question on their mailing list. Good luck!

ADD REPLYlink modified 5.1 years ago • written 5.1 years ago by liupfskygre190
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