Wrapper for python io3d package.

Package is used to read 3D data from various file formats like DICOM, tiff. There is also support for open datasets download and organization datasets in data directory.

Install Io3d for Python. In command line use:

conda install -c mjirik -c conda-forge -c SimpleITK Io3d

which python

In Julia

ENV["PYTHON"] = "/home/mirjirik/space/conda-env/julia/bin/python"
] add PyCall
] build PyCall
] add https://github.com/mjirik/Pio3d.jl
using Pio3d

using Pio3d
Pio3d.datasets_download("nrn4")
datap = Pio3d.read3d(Pio3d.datasets_join_path("medical/orig/sample_data/nrn4.pklz"))
seg = data["data3d"] .> 4000

List of all available labels for dataset_download function can be obtained by fallowing command.

using Pio3d
Pio3d.get_labels()