Tutorial: Phase Plate Data
Learn how to work with Phase Plate data in CryoSPARC.
How to specify phase plate data
You can specify the data was collected using a phase plate, when you import the corresponding movies or micrographs.
Import phase plate movies or micrographs
When importing phase plate movies or micrographs, use the Phase Plate Data toggle in the Import Movies
or Import Micrographs
jobs to indicate that you are importing phase plate data. Subsequent jobs that use the imported phase plate data, will adjust their relevant parameters accordingly (for more details, see below: Jobs affected by phase plate data).
Jobs and parameters affected by Phase Plate Data
Import Movies
: "Phase Plate Data" toggle will setmscope_params/phase_plate
to1
(True)Import Micrographs
: "Phase Plate Data" toggle will setmscope_params/phase_plate
to1
(True)Patch CTF Estimation
: Enables phase-shift search & refinementCTFFIND4 Wrapper
: Enables phase-shift search & refinement
Data type reference chart
Data Type | Data Sign | Description |
Cryo-EM | +1 | dark-on-light |
Negative Stain | -1 | light-on-dark |
Note: Cryo-EM data is typically recorded as +1 (dark-on-light) but is often inverted during processing.
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