Auxiliary commands

Standalone tools. Run habit <command> --help for all flags.

habit dicom-info

Export DICOM metadata to CSV / Excel.

habit dicom-info -i ./demo_data/dicom -o info.csv

habit icc

Intraclass correlation (ICC) for feature reproducibility.

habit icc --config config/auxiliary/config_icc_demo.yaml

See Auxiliary Tools and Data Configuration · walkthrough Auxiliary tools.

habit retest

Test-retest habitat mapping analysis.

habit retest --config config/auxiliary/config_test_retest.yaml

See Auxiliary Tools and Data Configuration · walkthrough Auxiliary tools.

habit merge-csv

Merge CSV / Excel files on an index column.

habit merge-csv file1.csv file2.csv -o merged.csv --index-col PatientID

habit dice

Dice coefficient between two mask sets.

habit dice --input1 dir1 --input2 dir2 --output dice_results.csv