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SBOL support in OVE #786

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mfero opened this issue Nov 2, 2021 · 1 comment
Open

SBOL support in OVE #786

mfero opened this issue Nov 2, 2021 · 1 comment
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Context: OVE Stand Alone Open Vector Editor Priority: 2-High Type: Feature New Feature, not an Enhancement or Improvement on an Existing Feature

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@mfero
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mfero commented Nov 2, 2021

@tnrich This is s stub for the SBOL support ticket
@jakebeal will join this repo and contribute

@mfero mfero added Context: OVE Stand Alone Open Vector Editor Priority: 3-Normal Type: Feature New Feature, not an Enhancement or Improvement on an Existing Feature labels Nov 2, 2021
@jakebeal
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jakebeal commented Nov 2, 2021

This might be fairly easy to support at a basic level, as https://github.com/SynBioDex/SBOL-utilities has an sbol-to-genbank converter that can be run from python or the command line to convert between SBOL3, SBOL2, GenBank, and FASTA.

The key things to do would be:

  1. Searching the SBOL3 document for Component objects with type=DNA (maybe also RNA or amino acid if you support those too?)
  2. Keeping some breadcrumbs back to the original SBOL3 object and the document it's stored in to avoid destroying more information than necessary, since down-conversion to GenBank is lossy.

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Context: OVE Stand Alone Open Vector Editor Priority: 2-High Type: Feature New Feature, not an Enhancement or Improvement on an Existing Feature
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