MMTF News
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"A-082: Scalable, Interactive, and Reproducible Data Mining of 3D Macromolecular Structures".
Poster
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"B-530: Interactive Exploration, Data Mining, and Visualization of 3D Macromolecular Structures".
Rose AS, Bradley AR, Valasatava Y, Duarte JM, Prlić A, Rose PW (2018) NGL viewer: web-based molecular graphics for large complexes, Bioinformatics, bty419. doi:10.1093/bioinformatics/bty419
ITCR 2018 Meeting, Bethesda, Maryland, May 23-24, 2018
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"MMTF-Spark: Interactive, Scalable, and Reproducible Datamining of 3D Macromolecular Structures".
Slides
MMTF 2018 Workshop, La Jolla, California, May 7-9, 2018
The second MMTF workshop:
Scalable and Reproducible Structural Bioinformatics: Workshop & Hackathon 2018
has been scheduled for May 7 - 9, 2018 at UCSD. This workshop is sponsored by the NIH Big Data to Knowledge (BD2K) initiative.
Air travel and 4-day lodging can be provided for non-commercial participants, including a limited number of international participants.
Apply now to secure your place in the workshop.
Participants will be selected based on the best fit to the program. Application deadline extended to April 8, 2018.
California BD2K Workshop, Huntington Beach, California, September 15, 2017
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Compressive Structural Bioinformatics: High Efficiency 3D Structure Compression, by Peter Rose
MMTF 2017 Workshop, San Diego, California, June 26-28, 2017
The first MMTF workshop was held at UC San Diego with a focus on 3D structure visualization and application of Big Data technologies to
problems in Structural Bioinformatics. Course materials consisting of presentations, software installation instructions, demos, and excercises
are available from the workshop GitHub repository.
Bradley AR, Rose AS, Pavelka A, Valasatava Y, Duarte JM, Prlić A, Rose PW (2017) MMTF - an efficient file format for the transmission, visualization, and analysis of macromolecular structures.
PLOS Computational Biology 13(6): e1005575; doi: https://doi.org/10.1371/journal.pcbi.1005575
The latest version of ChemDoodle 3D can read and write MMTF files, and can load them from URLs.
Structural Bioinformatics Training Workshop and Hackathon 2017: Application of Big Data
Technology and 3D Visualization, San Diego Supercomputer Center, University of California, San Diego.
Support for travel is available for a limited number of participants from non-profit
organizations.
Apply now! Application deadline April 30, 2017.
Bradley AR, Rose AS, Pavelka A, Valasatava Y, Duarte JM, Prlić A, Rose PW (2017) MMTF - an efficient file format for the transmission, visualization, and analysis of macromolecular structures.
bioRxiv 122689; doi: https://doi.org/10.1101/122689
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"Scalable web-based molecular graphics and visualization of structure quality metrics", by Alexander Rose
Valasatava Y, Bradley AR, Rose AS, Duarte JM, Prlić A, Rose PW (2017) Towards an efficient compression of 3D coordinates of macromolecular structures.
PLOS ONE 12(3): e0174846. doi: 10.1371/journal.pone.0174846
Please see
job description. Applications will be reviewed on a first-come first-served basis.
BD2K All Hands Meeting, North Bethesda, Maryland, November 29-30, 2016
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"Compressive Structural Bioinformatics: Large-scale analysis and visualization of the PDB archive".
Abstract | Slides
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"MMTF, an ultrafast format for macromolecular data transmission".
Experimental MMTF load support in PyMOL v1.8.4
We are happy to announce that the release of PyMOL v1.8.4 has an experimental MMTF load support.
End of support for version 0.2 on November 1, 2016.
With the release of MMTF version 1.0 we will end support for version 0.2 on November 1st. Until then the wwPDB archive files are available at
http://mmtf.rcsb.org/download.html and will be updated on a weekly basis for version 1.0 and 0.2. Please update your libraries as soon as possible. The latest versions of our Java, Python and JavaScript libraries support version 1.0. If you need more time updating please don't hesitate to
contact us.
MMTF 1.0 released on August 15, 2016!
The MMTF project is pleased to announce the release of MMTF v1.0. MMTF is an open-source binary file format
optimized for efficient transmittion and fast parsing of 3D structures of biological macromolecules.
Today MMTF ships with support for working with:
The major feature added in this release includes the transformation matrices that describe noncrystallographic symmetry operations needed to create all molecules
in the unit cell (see the
changelog).
In addition to the new changes, this release saw significant advancements in stability and usability:
Stability
We released MMTF 0.0.1 over four months ago (April 26, 2016).
This extensive testing period enabled us to stress our server under a weekly update routine,
find any issues that might impact the stability of converting mmCIF to MMTF, fix them, and confirm they were fixed.
This all makes MMTF 1.0 our most stable release to date.
Usability
We designed MMTF to make it easy to incorporate to your projects.
Our format is already supported by
3Dmol,
MolSoft ICM v3.8-5
and
Jmol v14.5.4 has a preliminary MMTF reader.
The 1.0 release represents a milestone where we believe MMTF is ready for general use.
For more details, see
specification of MMTF 1.0.
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"Web-based Molecular Graphics".
Calit, Atkinson Hall, room 2004, San Diego, California, August 19, 2016, 10 - 11 am.
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"Scalable 3D molecular graphics on the web" by Alexander Rose
MMTF now has a logo.
Thanks to efforts of
Maria Voigt from Rutgers, The State University of New Jersey, MMTF has a logo:
Sequence-Structure Hackathon at ISMB Conference, Orlando, Florida, July 8-11, 2016
MMTF 0.2.0 released
Version 0.2 got released to public! For more info see the
specification or check the
changelog.
MMTF 0.1.0 released
We are happy to announce the release of MMTF 0.1.0!
This release includes Java and JavaScript API.