Ability to export poses in various formats

neuroinformatics-unit / movement

Python tools for analysing body movements across space and time

http://movement.neuroinformatics.dev

BSD 3-Clause "New" or "Revised" License

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Ability to export poses in various formats #13

Closed niksirbi closed 1 month ago

niksirbi commented 1 year ago

In particular, either DeepLabCut or SLEAP. This would be useful for converting between formats, especially for downstream analysis tools that are only made for one specific format.

### Tasks
- [ ] https://github.com/neuroinformatics-unit/movement/pull/33
- [ ] https://github.com/neuroinformatics-unit/movement/issues/39
- [ ] https://github.com/neuroinformatics-unit/movement/issues/46
- [ ] https://github.com/neuroinformatics-unit/movement/issues/45
- [ ] https://github.com/neuroinformatics-unit/movement/issues/23

niksirbi commented 1 year ago

In PR #33 I have included a save_poses.to_dlc_file() function that exports data in DeepLabCut format (see however #39).

Apart from that we need additional export options:

a movement-native format, suitable for xarray objects (most likely zarr)
save_poses.to_sleap_file() that probably writes a SLEAP analysis.h5 file
ndx-pose NWB? see #23

niksirbi commented 1 year ago

I will keep this issue open to have an overview of the overall progress on exporting functionalities. Meanwhile, I've created separate smaller issues for each format and added them to this isse as a Tasklist.

niksirbi commented 1 month ago

Since this is a central goal of movement, and will always be, so it doesn't make sense to keep this tasklist forever open. Therefore, we decided to close it, but keep the individual issues open.