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Quality control
Stage
3
of 8
Included on all plans
Anisotropy Analysis
Anisotropy Analysis measures how much preferred orientation is limiting your map’s resolution from your refinement’s half-maps.
cFSC
Directional resolution, not one global number
SCF
Sampling compensation factor from the orientations
What it does
Anisotropy Analysis tells you whether preferred orientation is limiting your reconstruction, and by how much. Preferred orientation means some viewing directions are under-represented in the particle set. The map then resolves well along some axes and smears along others, so a single global resolution number can be misleading. The job reports the effect as a set of numbers and plots, so you can decide whether to collect more data, tilt the stage, or rebalance your particles before the next refinement.
How it works
The job takes the two half-maps from your refinement and computes a conical FSC: a resolution estimate along each of many directions through Fourier space. From these directional curves it derives one-number summaries: sphericity, cylindricity and the conical FSC area ratio (cFAR). A high cylindricity and low cFAR score means resolution depends strongly on direction. The job card shows the main metrics, and the visualisation page shows the full plots.
3DFSC slides along three perpendicular directions, tiles with key metrics and an cFSC curve are summarized to indicate anisotropic resolution disitributions.
Where it sits
Anisotropy analysis is automatically run at the end of the 3D refinement, and is also available as a separate job to diagnose preferred orientation.
If the Anisotropy Analysis indicates map anisotropy, the Prune Orientations might be able to mitigate it.
At a glance
Stage
Quality control
Runs
Automatically with 3D refinement
Hardware
CPU
Inputs
A reconstruction and its particle orientations
Outputs
Directional FSC curves, an SCF value & Cylindricity
Plots and 3D FSC slices are shown in the results tab, with no download needed.
Replaces
Availability
Included
Check the coverage before you trust a resolution number.
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