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add note on tomo centering
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brisvag committed Oct 11, 2023
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Expand Up @@ -63,7 +63,7 @@ and particle data in the following formats:
- Relion `.star`
- Dynamo `.tbl`
- Cryolo `.cbox` and `.box`
- EMAN2 `.json`
- EMAN2 `.json`[^1]

Writer functions currently exist for:
- `.mrc`
Expand All @@ -72,6 +72,8 @@ Writer functions currently exist for:
- Relion `.star`
- Dynamo `.tbl`

[^1]: EMAN2 uses the center of the tomogram as the origin for particle coordinates. This means that when opening a tomogram, you'll have to recenter the particles based on its dimensions. To do so automatically, you can use the `center_on_tomo` argument to provide the `hdf` file with the tomogram you want to use.

## Image data

When possible (and unless disabled), cryohub loads images lazily using [`dask`](https://docs.dask.org/en/stable/array.html). The resulting objects can be treated as normal numpy array, except one needs to call `array.compute()` to apply any pending operations and return the result.
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