Data Processing Tutorials

Tutorials on how to use CryoSPARC jobs and processing cryo-EM data.

Introduction to CryoSPARC

User Interface and Usage GuideGet Started with CryoSPARC: Introductory Tutorial (≤v3.3)Tutorial: Job Builder (≤v3.3)

Case Studies

Case Study: End-to-end processing of an inactive GPCR (EMPIAR-10668)Case Study: Exploratory data processing by Oliver ClarkeCase Study: Processing EMPIAR-10291 (300 Micrographs) to 3.4Å in 1 hour 25 minutesTutorial: Tips for Membrane Protein StructuresTutorial: Common CryoSPARC Plots

Data Processing

Alongside these tutorials, see: All Job Types in CryoSPARC and Tutorial Videos

Files, Data and Import

Tutorial: Negative Stain DataTutorial: Phase Plate DataTutorial: EER File SupportTutorial: EPU AFIS Beam Shift Import

Preprocessing

Tutorial: Patch Motion and Patch CTFTutorial: Manually Curate Exposures (≤v3.3)Tutorial: Float16 Support

Particle Picking

Tutorial: Particle Picking CalibrationTutorial: Blob Picker Tuner

Ab-initio Reconstruction

Case Study: Previously unknown conformation of AAA+ unfoldase discovered using cryoSPARC

https://cryosparc.com/blog/aaa-discovered-using-cryosparccryosparc.com

Helical Reconstruction

Tutorial: Helical Processing using EMPIAR-10031 (MAVS)

3D Refinement

Tutorial: Maximum Box Sizes for RefinementTutorial: CTF RefinementTutorial: Ewald Sphere CorrectionTutorial: Symmetry RelaxationTutorial: Orientation DiagnosticsTutorial: BILD files in CryoSPARC v4.4+

Local Refinement

Tutorial: Mask CreationCase Study: Yeast U4/U6.U5 tri-snRNP

Conformational Variability

Tutorial: 3D ClassificationTutorial: 3D Variability Analysis (Part One)Tutorial: 3D Variability Analysis (Part Two)Tutorial: 3D Flexible RefinementTutorial: 3D Flex Mesh Preparation