SBOL Editors Weekly Update - Apr. 18th
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Tramy Nguyen
Apr 18, 2018, 1:49:55 PM4/18/18
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HARMONY:
Oxford, UK on Jun. 18th - 22nd
HARMONY is an annual hackathon meeting where computational biologists from the COMBINE community come together to discuss their current status on the development of data standards for the biology community.
An attendance survey will be sent out within the next couple of days. We ask that those who plan on attending the SBOL breakout sessions to complete the survey so the editors could get a good idea on who to expect at the meeting, both locally and virtually.
SBOL Workshop @ SEED 2018:
Scottsdale, AZ on Jun. 3rd - 7th
SBOL will be holding a workshop at SEED on June 7th.
At this workshop, we will be having a variety of CAD tools presenting their take on how SBOL is used in their tool. So far, these are the tools that will be demoed at the workshop.
Repositories: SynBioHub and JBEI ICE
Design Tools: Cello, iBioSim, SBOLDesigner, and RBS Calculator
Test Tools: BOOST and TASBE
The SBOL workshop will be open to all SEED attendees.
Registration is required to attend the SBOL workshop.
Registration form is now open and will be FREE for all SEED attendees.
A registristration fee will be applied to non SEED attendees who wish to attend the SBOL workshop.
More information about what to expect at the SBOL workshop can be found here.
Google Summer of Code 2018:
Student applications are now closed.
The SBOL editors would like to wish potential students the best of luck on their final phase of the application process.
We look forward to hearing the names of the accepted students and projects that will be involved in this year's program.
Listed below are the four SBOL projects that have been proposed for this year's program.
- Parametric SVG as a flexible format for Synthetic Biology Open Language Visual (SBOLv) symbols
- Integrating CAD and CAM tools for automating a synthetic biology workflow
- Beautiful rendering of complex genetic designs in Python with DNAplotlib and the Synthetic Biology Open Language (SBOL)
- Add SBOL Import and Export Capabilities to the Synthetic Biology Tool TinkerCell
More information about this program can be found here.
News from this program are posted here.
A full timeline of this years program can be found here.
SBOL Data:
If you are a software developer and would like to support the latest data model in your tool, click on the links shown below to get the latest release and instructions on how to install. If you are encountering bugs while using the new release, let us know and report your issues to our GitHub issue tracker.
If you are curious to see what is in the SBOL data model 2.2, view the specification here.
For further questions regarding the implementation of these features, contact libsbol-team@googlegroups.com.
SBOL Visual:
Does your software tool support SBOL Visual 2.0.0 glyphs?
If so, let us know by e-mailing the SBOL Editors (sbol-e...@googlegroups.com).
We would like to update our SBOL Applications webpage to inform our community on the latest tools that support SBOL Visual 2.0.0 glyphs.
If you support SBOL Visual glyphs in your software tool but have not updated to 2.0 glyphs, please consider doing so.
SBOL Visual 2.0 was expanded to include not only nucleic acid components but also molecular species and functional interactions as well.
To view and download SBOL Visual 2.0 glyphs, click here.
We provide sample visual glyphs supported in PDF, SVG, and PNG.
There is also a Quick Introduction to SBOL Visual 2.0 that is provided here.
SBOL 2018 Workshops:
Mark your calendar! Here are a couple of workshops and conferences that we are planning on attending for this year.
SEED Scottsdale, AZ on Jun. 3rd - 7th
HARMONY Oxford, UK on Jun. 18th - 22nd
IWBDA Berkeley, CA on Jul. 31st - Aug. 3rd
COMBINE Boston, MA on Oct. 8th - 12th
iGEM Boston, MA on Oct 24th - 28th
Tramy Nguyen
Nic Roehner
Curtis Madsen
Angel Goñi-Moreno
Zach Palchick
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