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Retrieving large datasets from NCBI

Hi all, How to retrieve large datasets from NCBI for a particular species and then to connect NCBI database to our program so that we can get taxonomic ID of each species automatically without doing it manually.

for eg. Connect the NCBI database to Perl OR C#

Thanks Naresh

assembly seq
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updated by pld pld • written by Naresh Naresh

2 answers

If you plan on having very heavy access (very large queries, or many very small queries), I would just install a local copy of the NCBI taxonomy database.

Eutils asks that the query rate be no larger than 3 per second, so if you need to quickly bring up IDs for more than a few species, it probably wont work.

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written by pld pld

How to install a local copy of the NCBI taxonomy database?

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written by Naresh Naresh

It looks like what you're looking for is the eutils programs.

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written by Jean-Karim Heriche Jean-Karim Heriche

Yes. exactly. I need to get taxonomic IDs of saccharomyces pombe. and need to connect to my C# program.,

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written by Naresh Naresh

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