[3dem] CryoCloud v2.0

Tue Oct 1 08:43:26 PDT 2024

Dear 3DEM community,
We are excited to announce version 2.0 of CryoCloud.
The latest version of CryoCloud includes the following features:

  *   CryoCloud Picker: our new ML-based Picker, CryoCloud Picker, is now available as a pre-processing job. Tests on multiple datasets incl. small membrane & nucleoproteins show a reduced false positive rate, an increase of true positive particles of 40% (i.e. particles contributing to sub-4 A maps), increased & more detailed 2D classes, and enablement of initial map generation of difficult targets which failed using other ML pickers.
  *   Workflows (beta): a workflow editor is now available that allows setting up protocols to facilitate repeated and parallel analysis of datasets from motion correction to 3D refinement.
  *   cryoET (beta): cryoET projects are now supported. We added jobs for automated tilt series alignment, tomogram reconstruction, template matching and subtomogram classification & averaging. TS alignment and tomogram reconstruction jobs support high-throughputs of more than 500 TS per day.
  *   Interactive Graphs: we added interactive graphs and filters to all pre-processing jobs for improved data quality assessment and easier removal of bad data.
  *   Live results for pre-processing jobs: Motion & CTF results can now be inspected live during job runs and are updated every 10 seconds.
  *   Ice thickness: relative Ice thickness is now displayed as interactive graph in the CTF results page.
  *   Relion 5: all refinement jobs were updated to relion5 and Blush (Kimanius et al. 2024) can now be easily turned on with a toggle.
  *   Improved 2D classification results page: added metrics to 2D class average tiles and included class ranker score (Kimanius et al. 2021) to enable unsupervised 2D class selection.
  *   Improved billing page: added graphs and a calendar functionality that allows visualizing all used cloud resources for custom date ranges
  *   Float 16: aligned micrographs & particles are now saved by default in float 16 for storage space savings.
  *   Flexibility analysis & correction tools: cryoDRGN (Zhong et al. 2021) & Dynamight (Schwab et al., 2024) can now be run downstream of refinement jobs
  *   Model Building and refinement: added ModelAngelo (Jamali et al. 2024) for automated model building into density maps, and Servalcat (Yamashita et al. 2021) for structure refinement
  *   Many improvements for page loading times, data uploads, job setup pages & queuing.
  *   Free Plan for Academia: we are excited to offer a new free plan to all academic users that provides continuous access (limited to 3 cloud compute hours per month & 500 GB storage). Please use your institute’s email during the signup to facilitate the verification.

All of these new features are now live and easily accessible via our web-apps User interface, which provides no-code access to dozens of GPUs per user, scalable cloud storage & archiving, and our collaboration & team features.
If you are interested to test CryoCloud with our 30 day free trial or sign up for our new free plan for academia, you can signup here: https://urldefense.com/v3/__https://app.cryocloud.io/sign-up__;!!Mih3wA!DiP8fZDY-5tLOVFQbFSTKoaf5nCHxsf9Ag1ja0Grz2iq_U_i4D1jSC0xVaJduI_jvAMpei7jJlKAMh60hYDObA$ 
We are very grateful to all of our users and the cryo-EM community for your support and feedback.
Please reach out to hi at cryocloud.io<mailto:hi at cryocloud.io> for questions or inquiries.
Happy processing,
Robert

[cid:84bb425b-534b-41db-a041-6656e7c88ac3]

Robert Englmeier, PhD

Co-Founder & CEO at CryoCloud<https://urldefense.com/v3/__https://www.cryocloud.io/__;!!Mih3wA!DiP8fZDY-5tLOVFQbFSTKoaf5nCHxsf9Ag1ja0Grz2iq_U_i4D1jSC0xVaJduI_jvAMpei7jJlKAMh7wWjc9KA$ > [cid:a13dce41-f908-4b3c-928e-1926dc9e5a30] <https://urldefense.com/v3/__https://www.linkedin.com/company/cryocloud__;!!Mih3wA!DiP8fZDY-5tLOVFQbFSTKoaf5nCHxsf9Ag1ja0Grz2iq_U_i4D1jSC0xVaJduI_jvAMpei7jJlKAMh5q4NWSXA$ >  [cid:404502b6-409d-40f9-bfe3-d28e2cc8f4ac] <twitter.com/cryocloud_io>

Email robert at cryocloud.io<mailto:robert at cryocloud.io>

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