Table 1 Algorithms of NMF variants
From: The non-negative matrix factorization toolbox for biological data mining
Function | Description |
|---|---|
nmfrule | The standard NMF optimized by gradient-descent-based multiplicative rules. |
nmfnnls | The standard NMF optimized by NNLS active-set algorithm. |
seminmfrule | Semi-NMF optimized by multiplicative rules. |
seminmfnnls | Semi-NMF optimized by NNLS. |
sparsenmfnnls | Sparse-NMF optimized by NNLS. |
sparsenmfNNQP | Sparse-NMF optimized by NNQP. |
sparseseminmfnnls | Sparse semi-NMF optimized by NNLS. |
kernelnmfdecom | Kernel NMF through decomposing the kernel matrix of input data. |
kernelseminmfrule | Kernel semi-NMF optimized by multiplicative rule. |
kernelseminmfnnls | Kernel semi-NMF optimized by NNLS. |
kernelsparseseminmfnnls | Kernel sparse semi-NMF optimized by NNLS. |
kernelSparseNMFNNQP | Kernel sparse semi-NMF optimized by NNQP. |
convexnmfrule | Convex-NMF optimized by multiplicative rules. |
kernelconvexnmf | Kernel convex-NMF optimized by multiplicative rules. |
orthnmfrule | Orth-NMF optimized by multiplicative rules. |
wnmfrule | Weighted-NMF optimized by multiplicative rules. |
sparsenmf2rule | Sparse-NMF on both factors optimized by multiplicative rules. |
sparsenmf2nnqp | Sparse-NMF on both factors optimized by NNQP. |
vsmf | Versatile sparse matrix factorization optimized by NNQP and l1QP. |
nmf | The omnibus of the above algorithms. |
computeKernelMatrix | Compute the kernel matrix k(A,B) given a kernel function. |