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analyze_pt2_subcort_cvecs.m
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analyze_pt2_subcort_cvecs.m
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function analyze_pt2_subcort_cvecs(hemi, scROI, segType, meas, ...
cmat_thresh, bReload, varargin)
%% CONFIG: Subjects
sIDs.PWS = {'S01', 'S04', 'S06', 'S07', 'S08', 'S09', 'S10', 'S12', 'S15', ...
'S16', 'S17', 'S20', 'S21', 'S26', 'S28', 'S29', 'S33', 'S34', ...
'S36', 'S37'};
% Included S16 (But S16 should probably be kept in the group FA comparison)
% What's wrong with S21? Why was he excluded before, in
% aparcSL_FA_analysis?
sIDs.PFS = {'S02', 'S03', 'S05', 'S11', 'S13', 'S14', 'S18', 'S19', 'S22', ...
'S23', 'S25', 'S27', 'S30', 'S31', 'S32', 'S35', ...
'S39'};
% Left out S24, S38
%% CONFIG: Directory and file names
TRACT_RES_DIR = '/users/cais/STUT/analysis/aparc12_tracts_pt2';
figSaveDir = '/users/cais/STUT/figures';
dsFN = sprintf('analyze_pt2_subcort_cvecs_ds.%s.%s.seg%s.mat', hemi, scROI, segType);
SEG_TYPE_NUMSEGS.A = 7;
SEG_TYPE_NUMSEGS.A2_5 = 1;
SEG_TYPE_NUMSEGS.A2_4 = 1;
%% CONFIG: Statistical thresholds
p_thresh_unc = 0.05;
p_thresh_crl_unc = 0.005;
%%
bMaleOnly = ~isempty(fsic(varargin, 'maleOnly'));
%%
sprois = get_aparc12_cortical_rois('speech', hemi);
% sprois = get_aparc12_cortical_rois(hemi);
nrois = length(sprois);
grps = fields(sIDs);
a_cmat = struct;
if length(strfind(segType, '-')) == 1
segType1 = strrep(segType, '-', '_');
nSegs = SEG_TYPE_NUMSEGS.(segType1);
else
nSegs = SEG_TYPE_NUMSEGS.(segType);
end
if bReload
for i1 = 1 : numel(grps)
grp = grps{i1};
a_cmat.(grp) = nan(nSegs, nrois, numel(sIDs.(grp)));
for i2 = 1 : numel(sIDs.(grp))
sID = sIDs.(grp){i2};
fprintf(1, 'Loading data from subject (%s) %s...\n', grp, sID);
mat_fn = fullfile(TRACT_RES_DIR, sID, ...
sprintf('connmats.pt2.%s.%s.seg%s.mat', ...
hemi, scROI, segType));
sdat = load(mat_fn);
if isequal(meas, 'tmn')
t_cmat = sdat.connmat_mean_norm;
else
error('Unrecognized meas name: %s', meas);
end
% --- Find out the indices of the each of the sprois --- %
idxs = nan(1, length(sprois));
for k1 = 1 : length(sprois)
idxs(k1) = strmatch(sprois{k1}, sdat.h_rois, 'exact');
end
a_cmat.(grp)(:, :, i2) = t_cmat(:, idxs);
% figplot(t_cmat_tmn(:), t_cmat_wtn(:), 'bo');
end
end
save(dsFN, 'a_cmat');
fprintf(1, 'INFO: saved data to file: %s\n', dsFN);
else
load(dsFN);
end
%% Exclude subjects based on gender (optional)
if bMaleOnly
for i1 = 1 : numel(grps)
grp = grps{i1};
bKeep = ones(1, numel(sIDs.(grp)));
for i2 = 1 : numel(sIDs.(grp))
t_gend = get_subj_gender(sIDs.(grp){i2});
if isequal(t_gend, 'Female')
bKeep(i2) = 0;
end
end
sIDs.(grp) = sIDs.(grp)(find(bKeep));
a_cmat_tmn.(grp) = a_cmat_tmn.(grp)(:, :, find(bKeep));
a_cmat_wtn.(grp) = a_cmat_wtn.(grp)(:, :, find(bKeep));
end
end
%% Load the SSI4 scores
SSI4 = nan(1, length(sIDs.PWS));
for i1 = 1 : numel(sIDs.PWS)
SSI4(i1) = ds_SSI4(sIDs.PWS{i1});
end
%% Element-by-element between-group comparisons and correlations
p_t = nan(nSegs, nrois); % p-values from t-tests
p_rs = nan(nSegs, nrois); % p-values from rank-sum tests
sgn_rs = nan(nSegs, nrois);
rho_SSI4_spr = nan(nrois, nrois);
p_SSI4_spr = nan(nrois, nrois); % p-values from Spearman correlation with SSI4 (PWS only)
%
% rho_EHcomp_spr = nan(nrois, nrois);
% p_EHcomp_spr = nan(nrois, nrois);
%
% rho_rnSV_spr = nan(nrois, nrois);
% p_rnSV_spr = nan(nrois, nrois);
for i1 = 1 : nSegs
for i2 = 1 : nrois
v_PFS = squeeze(a_cmat.PFS(i1, i2, :));
v_PWS = squeeze(a_cmat.PWS(i1, i2, :));
[foo, p_t(i1, i2)] = ttest2(v_PFS, v_PWS);
[p_rs(i1, i2), foo, stats] = ranksum(v_PFS, v_PWS);
if median(v_PWS) < median(v_PFS)
sgn_rs(i1, i2) = -1;
else
sgn_rs(i1, i2) = 1;
end
% % --- Correlation with SSI4 --- %
[rho_SSI4_spr(i1, i2), foo, p_SSI4_spr(i1, i2)] = ...
spear(v_PWS, SSI4(:));
%
% % --- Correlation with EH_comp --- %
% v_2grp = [v_PWS; v_PFS];
% EHcomp_2grp = [EH_comp.PWS, EH_comp.PFS];
% [rho_EHcomp_spr(i1, i2), ~, p_EHcomp_spr(i1, i2)] = ...
% spear(v_2grp(:), EHcomp_2grp(:));
%
% % --- Correlation with rnSV --- %
% rnSV_2grp = [rnSV.PWS, rnSV.PFS];
% [rho_rnSV_spr(i1, i2), ~, p_rnSV_spr(i1, i2)] = ...
% spear(v_2grp(:), rnSV_2grp(:));
end
end
sig_rs = -log10(p_rs) .* sgn_rs;
%% Print results from the between-group comparison
fprintf(1, '=== Significant differences from rank-sum test (p_thresh_unc = %f) ===\n', ...
p_thresh_unc);
for i1 = 1 : nSegs
for i2 = 1 : nrois
if p_rs(i1, i2) < p_thresh_unc
med_PFS = median(squeeze(a_cmat.PFS(i1, i2, :)));
med_PWS = median(squeeze(a_cmat.PWS(i1, i2, :)));
if med_PWS < med_PFS
diffDir = '<';
else
diffDir = '>';
end
% Look at SSI4 correlation
if p_SSI4_spr(i1, i2) < 0.05
if rho_SSI4_spr(i1, i2) < 0
crlStr = sprintf('-: %.3f', p_SSI4_spr(i1, i2));
else
crlStr = sprintf('+: %.3f', p_SSI4_spr(i1, i2));
end
else
crlStr = '';
end
fprintf(1, 'Segment #%d -> %s:\tmed = %f (PWS) %s %f (PFS); p = %e [%s]\n', ...
i1, sprois{i2}, ...
med_PWS, diffDir, med_PFS, p_rs(i1,i2), crlStr);
% fprintf(1, 'Segment #%d -> %s:\tmed = %f (PWS) %s %f (PFS); p = %e\n', ...
% i1, sprois{i2}, ...
% med_PWS, diffDir, med_PFS, p_rs(i1,i2));
end
end
end
fprintf(1, '\n');
return