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• Document the pydna/src/pydna/sequence_picker.py

  Explain How it works and what it is for.

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• Implement gateway cloning

  See stub in /src/pydna/gateway.py 1. Look for gateway sites and cut all sequences at these sites. This will produce linear sequences. 2. create a graph sequences are nodes and edges indicate connections with other fragments. 3. trace circular paths through the graph.

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• Implement GoldenGate cloning

  See stub in src/pydna/goldengate.py Input is a list of linear Dseqrecords and a list of enzymes. Screen all sequences for enzymes and pick the first that does not cut any sequence. Pick hinges with GoldenHinges (see stub) Digest and form a linear or circular molecule. https://edinburgh-genome-foundry.github.io/GoldenHinges

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• Filter out of bound fragment in gel

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• Add colorama to pydna.dseqrecord.Dseqrecord.figure()

  Use colorama for the pydna.dseqrecord.Dseqrecord.figure() method instead of raw ANSI codes. As is, it probably does not work on windows. https://github.com/tartley/colorama https://github.com/erikrose/blessings

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