Set noise estimation model
bayes_parm = vb_set_noise_estimation_model(bayes_parm, proj_root)
--- Input field
Noise estimation model is determined according to the following fields
bayes_parm.forward_model
bayes_parm.noise_estimation_model
bayes_parm.soft_mode
--- Output field
--- Noise estimation model
bayes_parm.megnoisefile % MEG sensor noise file
bayes_parm.twin_noise % Noise estimation time window
bayes_parm.twin_global % Baseline activity estimation time window
bayes_parm.noise_model % Covariance noise matrix
bayes_parm.update_sx % sensor noise update flag
bayes_parm.update_v % current baseline update flag
bayes_parm.flag_baseline % sensor noise estimation flag
bayes_parm.flag_noise_set % current baseline estimation flag
--- Global window
bayes_parm.basisfile_global
bayes_parm.area_key_global
bayes_parm.Rfilt_global
--- Soft normal constraint
bayes_parm.variance_orientation
--- Possible noise_estimation_model
'COVARIANCE NOISE' : forward_model = 'focal' or 'focal+global'
sx0 = pretriger noise
current baseline estimation together with sensor noise estimation
= 1 : update_sx = ON, update_v = OFF - Default for 'focal'
= 2 : update_sx = OFF, update_v = OFF (NO UPDATE)
'ISOTROPIC NOISE' : forward_model = 'focal+global'
sx0 = estimated noise with current baseline
current baseline estimation together with sensor noise estimation
= 3 : update_sx = ON, update_v = ON - Default for 'focal+global'
= 4 : update_sx = ON, update_v = OFF (NO GLOBAL UPDATE)
= 5 : update_sx = OFF, update_v = OFF (NO UPDATE)
'FIXED NOISE' : forward_model = 'focal+global'
sx0 = pretriger noise
current baseline estimation with fixed sensor noise
= 6 : update_sx = OFF, update_v = ON
= 7 : update_sx = OFF, update_v = OFF (NO UPDATE)
[history]
vbmeg-0.45 M. Sato , 2005-8-31
2011-06-20 taku-y
[debug]: megfile -> megfile_baseline in
Copyright (C) 2011, ATR All Rights Reserved.
License : New BSD License(see VBMEG_LICENSE.txt)0001 function bayes_parm = vb_set_noise_estimation_model(bayes_parm, proj_root) 0002 % Set noise estimation model 0003 % bayes_parm = vb_set_noise_estimation_model(bayes_parm, proj_root) 0004 % --- Input field 0005 % Noise estimation model is determined according to the following fields 0006 % bayes_parm.forward_model 0007 % bayes_parm.noise_estimation_model 0008 % bayes_parm.soft_mode 0009 % 0010 % --- Output field 0011 % 0012 % --- Noise estimation model 0013 % bayes_parm.megnoisefile % MEG sensor noise file 0014 % bayes_parm.twin_noise % Noise estimation time window 0015 % bayes_parm.twin_global % Baseline activity estimation time window 0016 % bayes_parm.noise_model % Covariance noise matrix 0017 % bayes_parm.update_sx % sensor noise update flag 0018 % bayes_parm.update_v % current baseline update flag 0019 % bayes_parm.flag_baseline % sensor noise estimation flag 0020 % bayes_parm.flag_noise_set % current baseline estimation flag 0021 % --- Global window 0022 % bayes_parm.basisfile_global 0023 % bayes_parm.area_key_global 0024 % bayes_parm.Rfilt_global 0025 % --- Soft normal constraint 0026 % bayes_parm.variance_orientation 0027 % 0028 % --- Possible noise_estimation_model 0029 % 'COVARIANCE NOISE' : forward_model = 'focal' or 'focal+global' 0030 % sx0 = pretriger noise 0031 % current baseline estimation together with sensor noise estimation 0032 % = 1 : update_sx = ON, update_v = OFF - Default for 'focal' 0033 % = 2 : update_sx = OFF, update_v = OFF (NO UPDATE) 0034 % 0035 % 'ISOTROPIC NOISE' : forward_model = 'focal+global' 0036 % sx0 = estimated noise with current baseline 0037 % current baseline estimation together with sensor noise estimation 0038 % = 3 : update_sx = ON, update_v = ON - Default for 'focal+global' 0039 % = 4 : update_sx = ON, update_v = OFF (NO GLOBAL UPDATE) 0040 % = 5 : update_sx = OFF, update_v = OFF (NO UPDATE) 0041 % 0042 % 'FIXED NOISE' : forward_model = 'focal+global' 0043 % sx0 = pretriger noise 0044 % current baseline estimation with fixed sensor noise 0045 % = 6 : update_sx = OFF, update_v = ON 0046 % = 7 : update_sx = OFF, update_v = OFF (NO UPDATE) 0047 % 0048 % [history] 0049 % vbmeg-0.45 M. Sato , 2005-8-31 0050 % 2011-06-20 taku-y 0051 % [debug]: megfile -> megfile_baseline in 0052 % 0053 % Copyright (C) 2011, ATR All Rights Reserved. 0054 % License : New BSD License(see VBMEG_LICENSE.txt) 0055 0056 %% --- Global window 0057 if ~isfield(bayes_parm,'basisfile_global') ... 0058 | isempty(bayes_parm.basisfile_global) 0059 bayes_parm.basisfile_global = bayes_parm.basisfile; 0060 end 0061 0062 switch bayes_parm.forward_model 0063 case 'focal+global' 0064 if ~isfield(bayes_parm,'area_key_global') ... 0065 | isempty(bayes_parm.area_key_global) 0066 bayes_parm.area_key_global = ['Cortex']; 0067 end 0068 if ~isfield(bayes_parm,'Rfilt_global') ... 0069 | isempty(bayes_parm.Rfilt_global) 0070 bayes_parm.Rfilt_global = 0; 0071 end 0072 case 'focal' 0073 bayes_parm.area_key_global = bayes_parm.area_key; 0074 bayes_parm.Rfilt_global = bayes_parm.Rfilt; 0075 end 0076 0077 %% --- Soft normal constraint 0078 if bayes_parm.soft_mode == 1, 0079 bayes_parm.variance_orientation = ON; 0080 else 0081 bayes_parm.variance_orientation = OFF; 0082 end 0083 0084 %% --- Noise_estimation_model 0085 switch bayes_parm.noise_estimation_model 0086 case {1,2}, 0087 % 'COVARIANCE NOISE' 0088 % Mainly used in focal model 0089 0090 %bayes_parm.megnoisefile = [bayes_parm.megfile]; 0091 %bayes_parm.megfile_baseline = [bayes_parm.megfile]; 0092 MEGinfo = vb_load_meg_info([proj_root filesep bayes_parm.megfile{1}]); 0093 0094 % Noise estimation time window 0095 if ~isfield(bayes_parm, 'twin_noise')|isempty(bayes_parm.twin_noise) 0096 bayes_parm.twin_noise = [1, MEGinfo.Pretrigger]; 0097 end 0098 % Baseline activity estimation time window 0099 %if ~isfield(bayes_parm, 'twin_global')|isempty(bayes_parm.twin_global) 0100 % bayes_parm.twin_global = [1, MEGinfo.Pretrigger]; 0101 %end 0102 if ~isfield(bayes_parm, 'twin_baseline')|isempty(bayes_parm.twin_baseline) 0103 bayes_parm.twin_baseline = [1, MEGinfo.Pretrigger]; 0104 end 0105 0106 % Covariance noise matrix 0107 bayes_parm.noise_model = 3; 0108 % current baseline estimation together with sensor noise estimation 0109 bayes_parm.flag_baseline = 0; 0110 % sx0 = pretriger noise 0111 bayes_parm.flag_noise_set = 0; 0112 0113 % update flag 0114 switch bayes_parm.noise_estimation_model 0115 case 1 0116 bayes_parm.update_sx = ON; 0117 bayes_parm.update_v = OFF; 0118 case 2 0119 % (NO UPDATE) 0120 bayes_parm.update_sx = OFF; 0121 bayes_parm.update_v = OFF; 0122 end 0123 case {3,4,5}, 0124 % 'ISOTROPIC NOISE' 0125 % Mainly used in focal+global model 0126 0127 %bayes_parm.megnoisefile = [bayes_parm.megfile]; 0128 %bayes_parm.megfile_baseline = [bayes_parm.megfile]; 0129 MEGinfo = vb_load_meg_info([proj_root filesep bayes_parm.megfile{1}]); 0130 % Noise estimation time window 0131 if ~isfield(bayes_parm, 'twin_noise')|isempty(bayes_parm.twin_noise) 0132 bayes_parm.twin_noise = [1, MEGinfo.Pretrigger]; 0133 end 0134 % Baseline activity estimation time window 0135 %if ~isfield(bayes_parm, 'twin_global')|isempty(bayes_parm.twin_global) 0136 % bayes_parm.twin_global = [1, MEGinfo.Pretrigger]; 0137 %end 0138 if ~isfield(bayes_parm, 'twin_baseline')|isempty(bayes_parm.twin_baseline) 0139 bayes_parm.twin_baseline = [1, MEGinfo.Pretrigger]; 0140 end 0141 0142 % Identity noise matrix 0143 bayes_parm.noise_model = 1; 0144 % current baseline estimation together with sensor noise estimation 0145 bayes_parm.flag_baseline = 0; 0146 % sx0 = estimated noise with current baseline 0147 bayes_parm.flag_noise_set = 1; 0148 0149 % update flag 0150 switch bayes_parm.noise_estimation_model 0151 case 3 0152 bayes_parm.update_sx = ON; 0153 bayes_parm.update_v = ON; 0154 case 4 0155 % (NO GLOBAL UPDATE) 0156 bayes_parm.update_sx = ON; 0157 bayes_parm.update_v = OFF; 0158 case 5 0159 % (NO UPDATE) 0160 bayes_parm.update_sx = OFF; 0161 bayes_parm.update_v = OFF; 0162 end 0163 case {6,7}, 0164 % 'FIXED NOISE' 0165 % Only for focal+global model 0166 0167 %if ~isfield(bayes_parm,'megnoisefile') ... 0168 % | isempty(bayes_parm.megnoisefile), 0169 % error('Please specify the file for observation noise specification'); 0170 %end 0171 if ~isfield(bayes_parm,'megfile_baseline') ... 0172 | isempty(bayes_parm.megfile_baseline), 0173 error('Please specify the file for observation noise specification'); 0174 end 0175 if bayes_parm.forward_model ~= 'focal+global', 0176 error('forward_model should be focal+global in SUPPLY NOISE FILE'); 0177 end 0178 0179 % Noise estimation time window 0180 %MEGinfo = vb_load_meg_info([proj_root filesep bayes_parm.megnoisefile{1}]); 0181 MEGinfo = vb_load_meg_info([proj_root filesep bayes_parm.megfile_baseline{1}]); 0182 if ~isfield(bayes_parm, 'twin_noise')|isempty(bayes_parm.twin_noise) 0183 bayes_parm.twin_noise = [1, MEGinfo.Nsample]; 0184 end 0185 % Baseline activity estimation time window 0186 MEGinfo = vb_load_meg_info([proj_root filesep bayes_parm.megfile{1}]); 0187 %if ~isfield(bayes_parm, 'twin_global')|isempty(bayes_parm.twin_global) 0188 % bayes_parm.twin_global = [1, MEGinfo.Pretrigger]; 0189 %end 0190 if ~isfield(bayes_parm, 'twin_baseline')|isempty(bayes_parm.twin_baseline) 0191 bayes_parm.twin_baseline = [1, MEGinfo.Pretrigger]; 0192 end 0193 0194 % Covariance noise matrix 0195 bayes_parm.noise_model = 3; 0196 % current baseline estimation with fixed sensor noise 0197 bayes_parm.flag_baseline = 1; 0198 % sx0 = pretriger noise 0199 bayes_parm.flag_noise_set = 0; % ?? current setting = 1 ?? 0200 0201 % update flag 0202 switch bayes_parm.noise_estimation_model 0203 case 6, 0204 bayes_parm.update_sx = OFF; 0205 bayes_parm.update_v = ON; 0206 case 7, 0207 % (NO UPDATE) 0208 bayes_parm.update_sx = OFF; 0209 bayes_parm.update_v = OFF; 0210 end 0211 otherwise 0212 error('No such options'); 0213 end 0214 0215 return;