OTT-Taxonomy

This repository contains the code to download the OTT taxonomy with different versions.

Installation

To install this package simply run :

pip install git+https://github.com/mvisani/ott-taxonomy

Usage

To download all the files of all the versions of the taxonomy, you can run the following command:

python examples/download_ott_taxonomy.py all

You can also do :

from ott_taxonomy import Dataset
ott = Dataset.load("ott3.6")
full_graph = ott.to_networkx()
subgraph = ott.generate_subgraph_from_id(770311)

# if you want to remove the subspecies:
subgraph = ott.generate_subgraph_from_id(770311, keep_subspecies=False)

Or get the dataframe :

from ott_taxonomy import Dataset
ott = Dataset.load("ott3.6")
df = ott.get_taxonomy()