pachterlab / FGP_2024

Introduction

This repository contains code for reproducing the figures and results in the preprint Meichen Fang, Gennady Gorin, Lior Pachter (2024).

Repository Contents

• RADOM/: a python package that implement the fitting

  • models/:
    • two_species_ss.py:
    • two_species_ss_tau.py:
    • one_species.py:
  • inference.py: Define the Trajectory class

• simulations/: notebooks for simulations.

• notebooks/: notebooks to perform all analyses on real datasets.

  • forebrain.ipynb:
  • erythroid.ipynb:
  • rpe1.ipynb:
  • PBMC.ipynb:
  • Neuron.ipynb: