k-means hierarchical-clustering dna-sequence

How to do decimal encoding of DNA sequences (dataset)?

I need to perform K-means clustering and Hierarchical clustering of DNA sequences(nucleotide) sequences which i have downloaded in FASTA format. So before performing clustering I need to do DECIMAL ENCODING OF bases(a,t,c,g).. so how to do that.. so that i can take this input in the matrix form in MATLAB?.

Solution

Use the nt2int function. Documentation on it below:

http://www.mathworks.com/help/bioinfo/ref/nt2int.html

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