Skip to content

Latest commit

 

History

History
14 lines (8 loc) · 711 Bytes

README.md

File metadata and controls

14 lines (8 loc) · 711 Bytes

propinquity

Propinquity is a snakemake-based pipeline for constructing a synthetic tree of life. See https://peerj.com/articles/3058/ for a description and comparison of its performance to the previous tool used to build the Open Tree of Life's summary tree.

It takes as input a collection of phylogenetic trees from the Open Tree of Life datastore and a local copy of the Open Tree of Life Taxonomy. See the collections documentation for input on putting trees into collections.

Installation

Using python 3.8 or 3.9 (probably installing in a virtualenv)

pip install -r requirements.txt
python setup.py develop