IMC scan to Zarr conversion
Project description
IMC to Zarr converter
Convert IMC scan dataset to Zarr.
Install
pip install imc2zarr
Requirements
- click
- numpy
- pandas
- python_dateutil
- xarray
Usage
Arguments
- input_path:
- the root folder of the IMC scan containing a single mcd file and/or other related files: XML meta & scan data in text format
- or, the path of an mcd file
- output_path: the location where to store the converted output in Zarr format
From Python script
from imc2zarr import imc2zarr
imc2zarr(input_path, output_path)
From the command line
imc2zarr input_path output_path
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