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function [margt,margf,E]=margtfr(tfr,t,f) %MARGTFR Marginals and energy of a time-frequency representation. % [MARGT,MARGF,E]=MARGTFR(TFR,T,F) calculates the time and % frequency marginals and the en

function sig=sigmerge(x1,x2,ratio); %SIGMERGE Add two signals with given energy ratio in dB. % SIG=SIGMERGE(X1,X2,RATIO) adds two signals so that a given % energy ratio expressed in deciBels is satisf

function [dp_x,dp_y,ai,a_list,SUB_IND,p,energy]= preparecomparedata(SaveData,Run) dp_x=SaveData(Run).dp_x; dp_y=SaveData(Run).dp_y; criteria_val=SaveData(Run).criteriaid; NewVal=

function [iapp,ai,a_list,tau_list,omega_list,SUB_IND,energy,p]=applyprony(test_time,test_data,N,SUB_N,criteria_val) % Implements MATLAB Signal Processing Tooltbox prony function % performprony GU

//calculate the energy of stacked base pairs int erg1(int i, int j, int ip, int jp, structure *ct, datatable *data) { int energy; if ((i==(ct->numofbases))||(j==((ct->numofbases)+1))) {

Seq Energy ------------- AGAAT -1.0 AGCAT -1.0 AGGAT -1.0 AGTAT -1.0 CGAAG -2.0 CGCAG -2.0 CGGAG -2.0 CGTAG -2.0 GGAAC -2.0 GGCAC -2.0 GGGAC -2.0 GGTAC -2.0 T

Seq Energy ------------- GGGGAC -3.00 GGUGAC -3.00 CGAAAG -3.00 GGAGAC -3.00 CGCAAG -3.00 GGAAAC -3.00 CGGAAG -3.00 CUUCGG -3.00 CGUGAG -3.00 CGAAGG -2.50 CUACGG -2.50 GG

Seq Energy ------------- AGAAT -1.0 AGCAT -1.0 AGGAT -1.0 AGTAT -1.0 CGAAG -2.0 CGCAG -2.0 CGGAG -2.0 CGTAG -2.0 GGAAC -2.0 GGCAC -2.0 GGGAC -2.0 GGTAC -2.0 T

Seq Energy -------------

Seq Energy -------------