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GSOC 2022 PROJECT

Conversion between GenBank and SBOL3

Contributor
Mohit Makwana
Mentors
Tom Mitchell, jakebeal, Vishwesh Kulkarni
Organization
National Resource for Network Biology (NRNB)Science and medicine
Program
GSoC 2022Completed · Medium difficulty

About this project

Description from the program archive

The SBOL-Utilities repository is a python library that provides many useful methods and utilities on top of the main PySBOL3 implementation of SBOL3. All the utilities created in the SBOL-Utilities repository follows the design choices and implementations as described in the various SEPs (SBOL Enhancement Protocols). Now, GenBank is another popular file format for storing sequences, DNA components, etc, just like SBOL. Currently, SBOL-Utilities supports conversion to GenBank from SBOL3, but only by having an intermediate SBOL2 conversion. What I seek to implement in this project is a way to directly convert SBOL3 to GenBank, without any intermediate file formats. The final goal is to have a set of test GenBank files generated from conversion and implement unit tests for the same.

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Data: Google Summer of Code public archive. This project in the official archive