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RDMM example on synthetic data

This is a demo for the synthetic data experiments of the NeurIPS 2019 paper on Region-specific Diffeomorphic Metric Mapping.

Generate synthetic data

To start off we first show how to generate the synthetic data.

cd demos/rdmm_synth_data_generation
# by default uses 20 threads for data generation
python demo_for_generation.py

The optional settings in demo_for_generation.py are as follows:

Creates synthetic registration examples for RDMM related experiments

optional arguments:
  -h, --help            show this help message and exit
  -dp DATA_SAVING_PATH, --data_saving_path DATA_SAVING_PATH
                        path of the folder saving synthesis data
  -di DATA_TASK_PATH, --data_task_path DATA_TASK_PATH
                        path of the folder recording data info for
                        registration tasks

RDMM Registration

The data generation may take minutes. Once the data are prepared, we can run RDMM registration by

cd ..
python example_2d_synth.py

The optional settings in example_2d_synth.py are as follows:

Registration demo for 2d synthetic data

optional arguments:
  -h, --help            show this help message and exit
  --expr_name EXPR_NAME
                        the name of the experiment
  --data_task_path DATA_TASK_PATH
                        the path of data task folder
  --model_name MODEL_NAME
                        non-parametric method, vsvf/lddmm/rdmm are currently
                        supported in this demo
  --use_predefined_weight_in_rdmm
                        this flag is only for RDMM model, if set true, the
                        predefined regularizer mask will be loaded and only
                        the momentum will be optimized; if set false, both
                        weight and momenutm will be jointly optimized
  --mermaid_setting_path MERMAID_SETTING_PATH
                        path of mermaid setting json

Once the registrations are done, we can check the results at the default data_task_path ./rdmm_synth_data_generation/data_task.