Metadata-Version: 2.1
Name: monod
Version: 0.2.2.2
Summary: the Monod package fits CME models to sequencing data.
Home-page: https://github.com/pachterlab/monod
Author: Gennady Gorin, Lior Pachter
Author-email: ggorin@caltech.edu, lpachter@caltech.edu
Classifier: Programming Language :: Python :: 3
Classifier: License :: OSI Approved :: BSD License
Classifier: Operating System :: OS Independent
Requires-Python: >=3.6
Description-Content-Type: text/markdown
License-File: LICENSE
Requires-Dist: numpy
Requires-Dist: scipy
Requires-Dist: numdifftools
Requires-Dist: pytz
Requires-Dist: anndata
Requires-Dist: loompy

# *Monod*: a package for CME inference from seq data

[![PyPI version](https://badge.fury.io/py/monod.svg)](https://badge.fury.io/py/monod)

This repository contains the current version of the *Monod* package, which implements procedures for fitting and analyzing stochastic models of transcription and sequencing. 

Examples and tutorials are given at the [example repository](https://github.com/pachterlab/monod_examples). For theoretical background, see [Gorin & Pachter 2021](https://www.biorxiv.org/content/10.1101/2021.07.30.454514v1). For usage instructions, see the [readthedocs website](https://monod-examples.readthedocs.io/en/latest/index.html). For a sample workflow applied to four small datasets, see the [Colaboratory notebook](https://github.com/pachterlab/monod_examples/blob/main/Monod_demo.ipynb). 
