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STEP 4: Functional Connectivity
-------------------------------------
* **Input Coordinates for ROI Drawing**:
Click *FC*, *Draw ROI*. Both making a :file:`\*.csv` with coordinates (input type: file) or input coordinates divided with ";"(input type: manual) are admitted in BRANT. *Fig.2* shows the format of the csv file.
* **Choose Ref&mask**:
Choose a :file:`\*.nii` file as an example. The output files will follow its extracting information of origin, voxel size, bounding box, etc..
* **Extract ROI**:
Click *Merge/extract ROIs* in *FC* GUI, switch the operation to *extract*. Input *roi index* to choose which part you need in the roi file.
* **Input Directories for ROI Calculation**:
Click *ROI Calculation* in *FC* GUI. Select the folders as input directories where `STEP 2`_ outputs.
* **ROI Calculation**:
Change filetype to :file:`\fdnoGSR*.nii`, input roi file and roi index or just use the default settings. Select output directories.
.. figure:: _images/step4_roi_drawing.png
:align: left
fig.1 FC => Draw ROI
.. figure:: _images/step4_roi_drawing_input.png
:align: center
fig.2 example for csv format input
.. figure:: _images/step4_roi_extract.png
:align: center
fig.3 FC => Merge/extract ROIs
.. figure:: _images/step4_roi_calculation.png
:align: center
fig.4 FC => ROI Calculation
.. _`STEP 2`: example_2.html