`clinicadl` Documentation¶

Installation¶

clinicadl can be installed on Mac OS X and Linux machines, and possibly on Windows computers with a Linux Virtual Machine.

We assume that users installing and using clinicadl are comfortable with using the command line.

Installation

User documentation¶

Generate synthetic data for functional tests (`clinicadl generate`)¶

Prepare data for training (`clinicadl preprocessing`)¶

Create data (3D images, 3D pathches or 2D slices) for training (`clinicadl extract`)¶

Handle TSV files for metadata processing and data splits (`clinicadl tsvtool`)¶

Train with your data and create a model (`clinicadl train`)¶

Classify one image or a list of images with your previously trained model (`clinicadl classify`)¶

Support¶

Report an issue on GitHub
Use the clinicadl Google Group to ask for help!

License¶

clinicadl is distributed under the terms of the MIT license given here.

Citing `clinicadl`¶

For publications or communications using clinicadl, please cite (Wen et al., 2020) as well as the references mentioned on the wiki page of the pipelines you used (for example, citing PyTorch when using the extract pipeline).

Disclaimer

clinicadl is a software for research studies. It is not intended for use in medical routine

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clinicadl Documentation¶

Installation¶

User documentation¶

Generate synthetic data for functional tests (clinicadl generate)¶

Prepare data for training (clinicadl preprocessing)¶

Create data (3D images, 3D pathches or 2D slices) for training (clinicadl extract)¶

Handle TSV files for metadata processing and data splits (clinicadl tsvtool)¶

Train with your data and create a model (clinicadl train)¶

Classify one image or a list of images with your previously trained model (clinicadl classify)¶