R: NMF Multiplicative Updates for Kullback-Leibler Divergence

nmf_update.KL.h {NMF} | R Documentation

## NMF Multiplicative Updates for Kullback-Leibler Divergence

### Description

Multiplicative updates from Lee et al. (2001) for standard Nonnegative Matrix Factorization models V \approx W H, where the distance between the target matrix and its NMF estimate is measured by the Kullback-Leibler divergence.

`nmf_update.KL.w` and `nmf_update.KL.h` compute the updated basis and coefficient matrices respectively. They use a C++ implementation which is optimised for speed and memory usage.

`nmf_update.KL.w_R` and `nmf_update.KL.h_R` implement the same updates in plain R.

### Usage

      nmf_update.KL.h(v, w, h, nbterms = 0L, ncterms = 0L,
        copy = TRUE)

      nmf_update.KL.h_R(v, w, h, wh = NULL)

      nmf_update.KL.w(v, w, h, nbterms = 0L, ncterms = 0L,
        copy = TRUE)

      nmf_update.KL.w_R(v, w, h, wh = NULL)

### Arguments

`v` | target matrix
`w` | current basis matrix
`h` | current coefficient matrix
`nbterms` | number of fixed basis terms
`ncterms` | number of fixed coefficient terms
`copy` | logical that indicates if the update should be made on the original matrix directly (`FALSE`) or on a copy (`TRUE` - default). With `copy=FALSE` the memory footprint is very small, and some speed-up may be achieved in the case of big matrices. However, greater care should be taken due the side effect. We recommend that only experienced users use `copy=TRUE`.
`wh` | already computed NMF estimate used to compute the denominator term.

### Details

The coefficient matrix (`H`) is updated as follows:

H_kj <- H_kj ( sum_i [ W_ik V_ij / (WH)_ij ] ) / ( sum_i W_ik )

These updates are used in built-in NMF algorithms `KL` and `brunet`.

The basis matrix (`W`) is updated as follows:

W_ik <- W_ik ( sum_u [H_kl A_il / (WH)_il ] ) / ( sum_l H_kl )

### Value

a matrix of the same dimension as the input matrix to update (i.e. `w` or `h`). If `copy=FALSE`, the returned matrix uses the same memory as the input object.

### Author(s)

Update definitions by Lee2001.

C++ optimised implementation by Renaud Gaujoux.

### References

Lee DD and Seung H (2001). "Algorithms for non-negative matrix factorization." _Advances in neural information processing systems_. <URL: http://scholar.google.com/scholar?q=intitle:Algorithms+for+non-negative+matrix+factorization\#0>.

[Package NMF version 0.21.0 Index]