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ropensci / taxize

A taxonomic toolbelt for R
https://docs.ropensci.org/taxize
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E.g. of general class: Pull down all genera within a tribe or class #4

Closed sckott closed 12 years ago

sckott commented 13 years ago

From Carl Boettiger:

One thing that would be really useful to get from taxize is: given a higher taxanomic level, like class, return all the genus names that it includes. I seems I cannot search treebase by class (I can for fishbase at least), so it would be nice to simply get a list of every genus in the class and pipe that through the treebase search as a work around. What do you think?

I can then pull some traits for fish down from fishbase, and would have a working example combining three packages.

treebase and fishbase can pull down publication info, so it wouldn't be too much further to wrap in mendeley, though not sure why it would be useful -- readership is probably a poor proxy for data quality, but it would be possible.

sckott commented 13 years ago

Emailed ITIS about this on 13 October...waiting for response

They responded. There is no way to get all children downstream of a specific taxon TSN. Have to send separate queries for each, e.,g family within each class to get all the genera within each of those families

sckott commented 12 years ago

Because of the limitation of only pulling down DIRECT CHILDREN of a given TSN, perhaps we can parallelize the search for people with multiple core processors. Thoughts?

sckott commented 12 years ago

This is done, using the function downstream