.. image:: https://codecov.io/gh/meyer-lab/tHMM/branch/master/graph/badge.svg :target: https://codecov.io/gh/meyer-lab/tHMM
.. image:: https://readthedocs.org/projects/tHMM/badge/?version=latest :target: https://lineage-growth.readthedocs.io/
tHMM
is a Python3 package for clustering, visualizing, and analyzing data in the form of lineage trees. This work is now published in Communications Biology https://www.nature.com/articles/s42003-022-04208-9
.. code-block:: console
$ git clone https://github.com/meyer-lab/tHMM.git
It takes a few seconds to clone the repository.
This package is supported on macOS and Linux systems.
Python dependencies
``tHMM`` requires ``virtualenv``. All other required packages can then be installed using ``make venv`` to establish a virtual environment.
The Python packages that will be installed are listed in pyproject.toml, and can be directly installed using ``poetry install``.
Documentation
-------------
Please find the documentation at https://thmm.readthedocs.io.
License
-------
This project is covered under the MIT License.