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A Python implementation of the MoClo system logic.

Project description

A Python implementation of the MoClo system logic.

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Requirements

biopython Sequence handling PyPI biopython Source biopython License biopython
cached-property Lazy regex evaluation PyPI cached-property Source cached-property License cached-property
six Python 2/3 compatibility PyPI six Source six License six

Installation

This package is available as a wheel, and can be installed with pip:

$ pip install --user moclo

To see more ways of installing, head over to the Installation page of the online documentation.

Kits

By itself, moclo is not very useful. To be able to simulate MoClo assemblies you can install some of the following toolkits:

  • moclo-ytk: MoClo Yeast ToolKit, John Dueber Lab, and Pichia ToolKit, Volker Sieber Lab
  • moclo-cidar: MoClo CIDAR kit, Douglas Densmore Lab
  • moclo-ecoflex: MoClo EcoFlex, Paul Freemont Lab
  • moclo-ig: Icon Genetics MoClo, Sylvestre Marillonnet Lab
  • moclo-gb3: Golden Braid 3.0, Diego Orzaez Lab

Toolkits ship with concrete implementation of the MoClo logic (using the DNA signatures and restriction enzymes from the reference paper), as well as official sequences obtained from AddGene and manually annotated with higher-quality features. These sequences can be accessed through the moclo.registry module, using the registry interface.

About

This library is licensed under the MIT License. It was developed during a placement at the InBio team at the Institut Pasteur of Paris during the summer of 2018.

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