Please follow the steps below: 

1. Defaults: icatb_defaults.m is set to use PCA phase correction. Z-Mahalanobis is used as the scaling step. Some variable description are as follows:

a. SCALE_TYPE - Options are 0, 1, 2, and 3 (Z-Mahalanobis). 
b. PCA_PHASE_CORRECTION - Options are 1 and 0.
c. Z_MAHALANOBIS - Threshold for Z-Mahalanobis 

2. Pre-processing: Use GIFT -> Tools Menu -> Pre-process Complex fMRI. This will let you select spatially normalized magnitude images followed by phase images. 
The phase denoised images are written as I_s*nii (Imaginary) and R_s*nii (Real).

3. Setup ICA - Select data step requires you to select Imaginary files or Phase files only. The corresponding real or magnitude files are selected based on the default 
parameters. Those variables are:

	READ_NAMING_COMPLEX_IMAGES.real_imag = {'R_', 'I_'};
	READ_NAMING_COMPLEX_IMAGES.mag_phase = {'Mag_', 'Phase_'};

4. Display GUI - Component and subject explorer display magnitude (Real) and Phase (Imaginary) component files. Presently, composite and orthoviewer display only the 
real (magnitude) part only.

5. Mahalanobis (*mahal*) distance maps and Bivariate t-maps (*bivarate*) are written to the disk. These can be displayed using buttons outside of display GUI (Component explorer).