What's new in v2.2

September 17, 2018

Since the official release exactly one month ago, we have been working hard to improve all aspects of cryoSPARC v2. Read on for a summary of new updates in today's v2.2 release.

New Local Refinement and Particle Subtraction jobs Beta

New

Local Refinement Beta and Particle Subtraction Beta jobs

  • Blog Post Local Refinement Beta in cryoSPARC v2
  • Blog Post Case Study: Yeast U4/U6.U5 tri-snRNP
  • Allowing for masked focused refinements and local angular searches, with option to also use non-uniform refinement Beta jointly for improved results
  • Fast particle subtraction and new volume tools to create and dilate masks making it easy to try refining different regions of a particle
  • Detailed case study applying these new jobs to the Yeast U4/U6.U5 tri-snRNP (EMPIAR-10073) available here

New sharpening tool to improve map quality

New

Sharpening job for post processing of refinement outputs

  • We recommend re-sharpening the final results of a refinement job and trying multiple sharpening b-factors to improve map quality and interpretability

Various updates to existing jobs, SSD caching, volume tools, and more

New
Command line option to turn off SSD caching for an entire project
Update
Non-Uniform Refinement fixes for issue that caused peripheral artefacts on some datasets, speedups
Update
Volume tools can now be used to threshold, dilate, or fill holes in masks
Update
Output separate .mrc files for templates included and templates excluded in Select 2D
Update
Added phase shifts to Manually Curate Exposures job
Update
Set default amplitude contrast value to 0.07 when importing .star files
Update
Added parameter to specify Negative Stain images in Extract from Micrographs and Local Motion Correction to output particles with correct datasign
Fixed
Job scheduler now checks if all necessary inputs are connected before launching a job
Fixed
Bugfixes and performance improvements for Manually Curate Exposures
Fixed
Users can now delete projects
Fixed
Bash is no longer required to be the default shell on worker nodes
Fixed
Creation time displays correctly on projects and workspaces
Fixed
Added option to limit the number of plots made in Inspect Picks
Fixed
Local motion correction can now handle empty movies with no particles
Fixed
Plotting bug in Extract from Micrographs that inverted the printed particles
Fixed
Volume plots are now created and labelled with the correct axis convention
Fixed
2D classification CPU RAM allocation increased to avoid crashes on cluster systems


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