takes a DNA strand s as input and returns the codon usage as a vector and structure

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KayLynn
KayLynn 2013-11-13
I am trying to do the following:Write a function takinga DNA strand s as input, calls the findorf(s) function to find the ORF, and returns the codon usage of the sequence as both a vector (each element corresponding to the count of a codon, where codons are in alphabetical order) and as a struct with each codon as a field, and its count as the number of occurence of that codon. The returned structure should contain all possible codons, with codons not occurring in the sequence having a count of 0.
I have the following code for the function above: function out=getcodonusage(z)
orf = findorf(z); NUCS='ATCG';
[x, y, z]=meshgrid(1:4,1:4,1:4); I = [ x(:) y(:) z(:)]; CODS=NUCS(I); for i=1:size(CODS,1) out.(CODS(i,:)) = sum(strcmpi(orf,CODS(i,:))); end
When i run this code in the command window, I get an error that says too many output arugments. If someone could pelase help me, I would appreciate it.

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