cryoSPARC
Notes for running cryoSPARC
Notes for running cryoSPARC
2D classification to clean up junk
2D classification to clean up junk
- Import RELION extracted stack into cryoSPARC
- Perform 2D classification with 150-200 classes with these options added:
- Preprocessing (advanced option): Window inner radius - use fraction of window that only includes particle
- Preprocessing (advanced option): Window normalize - False
- 2D classification: Number of 2D classes - 150-200
- 2D classification (advanced option): Use clamp-solvent to solve 2D classes - True
- 2D classification (advanced option): Use white noise model - False
3D initial model & sorting
3D initial model & sorting
- Run Ab Initio with a single model
- Select Ab Initio model x2 or x3 with particles to run heterogenous refinement
- Select model and class to run homogenous refinement