ref_fMRI_config.ini
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ref_fMRI_config.ini
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			[Global]
			imaging_model =
			process_type = fMRI
			subject_session = ses-01
			subjects = ['sub-01', 'sub-02']
			subject = sub-01

			[functional_stage]
			detrending = True
			detrending_mode = quadratic
			wm = True
			csf = False
			smoothing = 0.0
			motion = True
			discard_n_volumes = 5
			global_nuisance = False
			highpass_filter = 0.1
			lowpass_filter = 0.01
			scrubbing = True

			[preprocessing_stage]
			repetition_time = 1.92
			discard_n_volumes = 5
			slice_timing = bottom-top interleaved
			despiking = True
			motion_correction = True

			[connectome_stage]
			dvars_thr = 4.0
			fd_thr = 0.2
			output_types = ['gPickle']
			apply_scrubbing = False
			subject = sub-01

			[registration_stage]
			ants_nonlinear_cost = CC
			ants_nonlinear_update_field_variance = 3.0
			flirt_args =
			contrast_type = dti
			ants_upper_quantile = 0.995
			ants_nonlinear_total_field_variance = 0.0
			registration_mode = FSL
			init = header
			ants_interpolation = Linear
			ants_linear_sampling_perc = 0.25
			apply_to_eroded_wm = True
			ants_convergence_thresh = 1e-06
			ants_multilab_interpolation_parameters = (5.0, 5.0)
			ants_gauss_interpolation_parameters = (5.0, 5.0)
			ants_convergence_winsize = 10
			ants_bspline_interpolation_parameters = (3,)
			apply_to_eroded_brain = False
			uses_qform = True
			apply_to_eroded_csf = False
			ants_lower_quantile = 0.005
			no_search = True
			ants_linear_cost = MI
			ants_linear_gradient_step = 0.1
			pipeline = fMRI
			ants_perform_syn = True
			ants_linear_sampling_strategy = Regular
			dof = 6
			diffusion_imaging_model =
			fsl_cost = normmi
			ants_nonlinear_gradient_step = 0.1

			[Multi-processing]
			number_of_cores = 1