Pio3d
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
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
Test
using Pio3d
Pio3d.datasets_download("nrn4")
datap = Pio3d.read3d(Pio3d.datasets_join_path("medical/orig/sample_data/nrn4.pklz"))
seg = data["data3d"] .> 4000
Get labels
List of all available labels for dataset_download
function can be obtained by fallowing command.
using Pio3d
Pio3d.get_labels()