Generate an embedding with TomoTwin for a Zarr file
TomoTwin on an example from the czii cryoet dataportal.
Tags
templatejavaimagej2scijava
Citation
Rice, G., Wagner, T., Stabrin, M. et al. TomoTwin: generalized 3D localization of macromolecules in cryo-electron tomograms with structural data mining. Nat Methods (2023). https://doi.org/10.1038/s41592-023-01878-z.https://tomotwin-cryoet.readthedocs.io/en/stable/index.html
Solution written by
Kyle Harrington
License of solution
MIT
Arguments
--zarrinput
Path to the input Zarr file (default value: PARAMETER_VALUE)
--zarrembedding
Path for the output Zarr embedding file (default value: PARAMETER_VALUE)
--slices
Slices for the region of interest, specified as a string, e.g. (slice(0,100), slice(0,100), slice(0,100)) (default value: PARAMETER_VALUE)
Usage instructions
Please follow this link for details on how to install and run this solution.
