The mutational profile is naturally nonnegative. You can regard the latent k components as a combination of genes (i.e. metagene).
NMF can help you see which "parts" of genes function in which class of patients. In the case of face recognition, NMF can help you identify intuitional parts of faces, like mouths, eyes and noses.
Further, you can conveniently add regularization term to the normal NMF, in order to integrate useful information (e.g. PPI network or known relationships between patients) to the factorization process.
At last, you can try R packages including NMF or NNLM.
modified 3 months ago
3 months ago by
Minstein • 60