Cli Idif
========

.. py:module:: petpal.cli.cli_idif

.. autoapi-nested-parse::

   This script provides a command-line interface (CLI) to calculate the image-derived input function (IDIF) using necktangle methods.
   Users can choose between the single threshold method and the double threshold method.
   The script supports the following functionalities:
   - Single threshold method: Calculates the time-activity curve (TAC) from PET data using a single percentile threshold.
   - Double threshold method: Computes the IDIF from a 4D PET necktangle matrix using a double threshold method.
   Requires:
       The script relies on the :doc:`argparse <argparse:index>`, :doc:`numpy <numpy:index>`, and :doc:`nibabel <nibabel:index>` modules.
   Example usage:
       Using the single threshold method:
           .. code-block:: bash
               python idif_necktangle_cli.py single --pet-4d-filepath /path/to/pet_4d.nii --carotid-necktangle-mask-3d-filepath /path/to/mask.nii --percentile 90
       Using the double threshold method:
           .. code-block:: bash
               python idif_necktangle_cli.py double --necktangle-filepath /path/to/necktangle.npy --percentile 90 --frame-start-times-filepath /path/to/start_times.npy --frame-duration-times-filepath /path/to/duration_times.npy
   .. seealso:: :mod:`pet_cli.idif_necktangle` - Module for calculating IDIF using necktangle methods.