NAcVP2018/MatlabScripts/Supporting Programs/normalize.m

function Mnormal=normalize(M,Mbase,MD)

%MD is the type of normalization. 
%   0 = Z-score  >>(X-mean)/SD
%   1 = normalized to response max
%   2 = Baseline substracted
%   3 = normalized by SD only >> X/SD

%Added April 2012 to handle vectors
if size(M,2)==1, M=M'; Mbase=Mbase'; end
Mnormal=zeros(size(M));
for k=1:size(M,1)
    if MD==0
        Mnormal(k,:)=(M(k,:)-nanmean(Mbase(k,:)))/nanstd(Mbase(k,:)); % Zscore
    elseif MD==1
        Tmp=M(k,:)-nanmean(Mbase(k,:));
        Mnormal(k,:)=Tmp/max(abs(Tmp));% mean corrected normalized to RESPONSE MAX
    elseif MD==2
       Mnormal(k,:)=(M(k,:)-nanmean(Mbase(k,:)));
    elseif MD==3
            Mnormal(k,:)=M(k,:)/nanstd(Mbase(k,:)); % Zscore no demean
    end
end