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DNA overhang design for Golden Gate etc.

Project description

Golden Hinges (full documentation here) is a Python library to find sets of overhangs (also called junctions, or protrusions) for multipart DNA assembly such as Golden Gate assembly.

Given a set of constraints (GC content bounds, differences between overhangs, mandatory and forbidden overhangs) Golden Hinges enables to find:

  • Maximal sets of valid and inter-compatible overhangs.

  • Sequence decompositions (i.e. position of cuts) which produce valid and inter-compatible overhangs, for type-2S DNA assembly.

  • Sequence mutations (subject to constraints) which enable the sequence decomposition, in extreme cases where the original sequence does not allow for such decomposition.

Infos

PIP installation:

pip install goldenhinges

Web documentation:

https://edinburgh-genome-foundry.github.io/GoldenHinges/

Github Page (with examples)

https://github.com/Edinburgh-Genome-Foundry/GoldenHinges

Live demo:

http://cuba.genomefoundry.org/design_overhangs

License: MIT, Copyright Edinburgh Genome Foundry

More biology software

https://raw.githubusercontent.com/Edinburgh-Genome-Foundry/Edinburgh-Genome-Foundry.github.io/master/static/imgs/logos/egf-codon-horizontal.png

Golden Hinges is part of the EGF Codons synthetic biology software suite for DNA design, manufacturing and validation.

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