Hello. I want to know where can I download the NCBI taxonomy data file from the NCBI database?
The file that I am looking should contains the following:
- Taxonomy ID
- Common Name
- Scientific Name
If anyone can provide me the link, I'd be grateful. Thanks & Regards.
Hi there, thank you stackf03 for this thread. I'm in need of an automation to include the TaxaDB in a small thesis project. Hope you're still active members and can help me in the following questions:
NCBI keeps uploading to their ftp address the whole TaxaDB in the fashion you've shown in this thread. Do you know if there's any other source for this data?, better yet, in a different format? Since I need an automated way to import (and update) the taxa section of our DB. The dmp files are hard to handle (NCBI uses MySQL but this dump files are not directly from MySQL
If not another source of the data itself, any piece of software that uses TaxaDB as part of their functioning?. I will give a try to this one Taxadb. Would appreciate if there's another tool around.
The 'common-name' is stored in the names (file), for each name that a tax_id has there's a row for it, each indicates the name class. I comment this in case someone else finds this thread and wonders if the common name is there or not.