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# AntimonyCombinations ![Build Status](https://travis-ci.org/CiaranWelsh/AntimonyCombinations.svg?branch=master&style=flat) [![codecov](https://codecov.io/gh/CiaranWelsh/AntimonyCombinations/branch/master/graph/badge.svg)](https://codecov.io/gh/CiaranWelsh/AntimonyCombinations) [![docs](https://readthedocs.org/projects/antimonycombinations/badge/?version=latest&style=flat)](https://antimonycombinations.readthedocs.io/en/latest/)

AntimonyCombinations is a package developed on top of [tellurium](http://tellurium.analogmachine.org/) and [antimony](http://antimony.sourceforge.net/) for building [sbml](http://sbml.org/Main_Page) models in a combinatorial way.

The idea is that you have a core model which you are more confident in regarding its structure and an arbitrary number of additional hypotheses, called hypothesis extensions. AntimonyCombinations provides a way of quickly building the comprehensive set of model topologies, given the core hypothesis and hypothesis extensions.

## Installation

$ pip install AntimonyCombinations

## Import

>>> from antimony_combinations import Combinations, HypothesisExtension

## [See documentation here](https://antimonycombinations.readthedocs.io/en/latest/)

## Parameter estimations and model selection The precursor to this package was designed for a comprehensive model selection problem which used tellurium and antimony for constructing sbml models, and pycotools3 and COPASI for configuring and running parameter estimations. This can be, but is not currently supported. It is on the todo list.

Since connecting with COPASI in this way isn’t ideal it would also be advantageous to support a second backend that doesn’t rely on COPASI. This is a work in progress.

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