minor

% rhoSD_ssThresh: 15.0

%% COMMENTS/THOUGHTS/QUESTIONS ALEX

% 1) I think we can remove the original perf_temp_emb_cca.m function (done)

% 2) Output canonical correlation coefficients as quality metric? 

% 3) Output fNIRS signal(s)/Aux regressors for visualization/quality control?

% 4) Add single channel (regressor) feature - flag - how do we provide the individual outputs?

% 5) Implement the variable low/bandpass filter coefficients from previous processing stream

% Q1) why the flagtCCA?

%%

function [Aaux] = hmrR_tCCA(data, aux,  probe, yRuns, flagtCCA, tCCAparams, tCCAaux_inx, tCCArest_inx, rhoSD_ssThresh)

%% flags

flags.pcaf =  [0 0]; % no pca of X or AUX

flags.shrink = true;

% perform regularized (rtcca) (alternatively old approach)

rtccaflag = true;

flag_conc = true; % if 1 CCA inputs are in conc, if 0 CCA inputs are in intensity

%% extract user input