Library for ingesting and processing voxel (3D imaging) data
Project description
Voxio: I/O package for 3D images
Usage
- Read images in parallel with
simple_read_images(image_paths); convenience function with findersimple_find_read_images(image_directory, image_format) - Read volumes that would require more than system memory in chunks, use reader to perform compute/analysis
chunk_read_stack_images(image_paths, image_reader) - Remove artifacts from volume with single object
clear_everything_but_largest_object(image_paths, output_directory) - Alternative to
scipy.ndimage.labelfor situations with insufficient memorylabel_binary_image(image_paths, output_directory) - Interpolate along the first dimension (z-axis)
morphological_interpolation_max_resolution_spacing(labeled_stack, ceiled_inter_stack_voxel_distance)
Installation
pip install voxio
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