[3dem] CryoSPARC v2 Release
Ali Punjani
alipunjani at cs.toronto.edu
Fri Aug 17 08:42:32 PDT 2018
Dear 3DEM,
We are pleased to announce the public release of cryoSPARC™ v2!
Thank you to all v2 beta testers and the hundreds of labs using the
original version of cryoSPARC, released in 2017, for your tremendous
support and feedback. Click here to get cryoSPARC v2
<https://cryosparc.com/>.
*About v2*
CryoSPARC v2 is an easy to use and intuitive platform for all stages of
processing single particle cryo-EM data. This new version introduces new
algorithms, robust high-performance implementations of established
algorithms, and incorporates the methodological advances that were made in
the original cryoSPARC. A major software and UI redesign provides a new
fluid interface for basic and advanced users, automatic workflows, cluster
compatibility, and more. CryoSPARC is available for both academic and
commercial use, and is built by Structura Biotechnology Inc.
<https://structura.bio/>, where development of the software and methods are
ongoing.
[image: https://youtu.be/KFRyTujTGWA] <https://youtu.be/KFRyTujTGWA>
*Highlights*
- Optimized and robust full-pipeline processing from raw movies to
refined structures in just a few hours. For example, 3 hours on a single
workstation to process 1500 raw movies into a 2.2 A refined map of
beta-galactosidase
- Novel non-uniform refinement algorithm that accounts for disordered
regions in structures and achieves substantial gains in map quality and
resolution, especially for membrane proteins (beta version available now,
manuscript in preparation)
- New fast algorithms for motion correction with automatic data-driven
optimal smoothing for both full-frame and local motion correction with
exposure-weighting
- Powerful curation tool to identify, inspect and select high quality
micrographs
- Automatic particle selection with interactive curation and rejection
of false positives
- Extremely fast 2D classification. For example, 1,000,000 particles
into 50 classes in 2 hours on a single GPU
- Ab-initio reconstruction for both homogeneous and heterogeneous
datasets, capable of identifying multiple conformations, distinct
structures, and junk particles effectively and automatically
- Extremely fast high-resolution refinement, typically 30 minutes on a
single GPU for 100,000 particles
- Interactive tree view showing complete processing workflows and fluid
UI
- Drag and drop job builder: cryoSPARC handles all bookkeeping for
files, paths and metadata
- Smart queuing system that allows users to chain jobs together and
create complex workflows, and then queue them to run fully automatically
- Fully transparent, managed SSD caching - files are cached, reused, and
purged automatically
- Full cluster and multi-node support, allowing one cryoSPARC master
instance to spawn jobs on as many worker nodes as required
- Simple installation with no compilation and all dependencies bundled
- Clear documentation and tutorials
- Seamless upgrades as new versions are deployed
Click here <https://cryosparc.com/> for more information and to download
cryoSPARC v2. Full documentation <https://cryosparc.com/docs> and a
step-by-step
tutorial <https://cryosparc.com/docs/tutorial> are also available.
Thanks,
The cryoSPARC Team
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