Linking to the NCBI Taxonomy Database
You can make the links to NCBI taxonomy browser using either organism name or taxonomy id.
The link with an organism name looks like:
The link with a taxonomy id:
The taxonomy browser displays two kinds of pages - pages that show the classification itself, and pages that show only information about a particular taxon. For a classification page, an argument lvl sets the depth of the display. So, if for example you want to display just the immediate descendants for some taxon, then you have to set lvl=1.
The default value for this argument is 3. The zero value - lvl=0 forces a taxon display page (even for internal nodes)
If you want to see the various Entrez databases' record counters on a classification page, you have to use argument p with the name of the Entrez database as an argument like p=nucleotide. Currently the following databases are supported:
There are also links to some useful resources that can appear along with these counters. These links are also enabled using argument p and appear as named hotlinks. Currently this set includes:
There could be more than one argument p:
The taxon display page shows you a full lineage by default:
To display only an abbreviated lineage you have to use an argument lin=s:
And if you want to display the NCBI Taxonomy browser search page, you could use Taxonomy Browser's url without id and name argument (but you can preset other arguments for the users):
There are few parameters that are obsolete and left in place only for compatibility with older versions of Taxonomy Browser. They turn on and off display of some Entrez sequence counters:
These arguments could be mixed in any combination:
as well as mixed with p arguments:
Comments and questions to [email protected]