Treefit for Python - The first software for quantitative trajectory inference

This is an implementation of Treefit in Python.

Treefit is a novel data analysis toolkit that helps you perform two types of analysis: 1) checking the goodness-of-fit of tree models to your single-cell gene expression data; and 2) deciding which tree best fits your data.

Install

pip install treefit

Usage

The main functions are treefit.treefit() and treefit.plot():

fit = treefit.treefit(YOUR_SINGLE_CELL_GENE_EXPRESSION_DATA)
treefit.plot(fit)

See https://hayamizu-lab.github.io/treefit-python/ for details.