NMF Algorithm/Updates for Frobenius Norm
NMF Algorithm/Updates for Kullback-Leibler Divergence
Generic Interface for Nonnegative Matrix Factorisation Models
Defunct Functions and Classes in the NMF Package
Algorithms and framework for Nonnegative Matrix Factorization (NMF).
Class for Storing Heterogeneous NMF fits
NMF Model - Nonnegative Matrix Factorization with Offset
Base class that defines the interface for NMF seeding methods.
Interface for Single Function NMF Strategies
Interface for Algorithms: Implementation for Iterative NMF Algorithms
Base Class for to store Nonnegative Matrix Factorisation results
Virtual Class to Handle Results from Multiple Runs of NMF Algorithms
Factory Method for Multiple NMF Run Objects
Structure for Storing the Best Fit Amongst Multiple NMF Runs
Structure for Storing All Fits from Multiple NMF Runs
NMF Model - Nonsmooth Nonnegative Matrix Factorization
NMF Algorithm - Sparse NMF via Alternating NNLS
Utility function to aggregate numerical quality measures from 'NMFfitXn' objects.
Returns the method names used to compute the NMF fits in the list. It returns 'NULL' if the list is empty.
Testing Compatibility of Algorithm and Models
Generate Break Intervals from Numeric Variables
Builds a Color Palette from Compact Color Specification
Builds a Color Ramp from Compact Color Specification
Cluster Matrix Rows in Annotated Heatmaps
Clustering Connectivity and Consensus Matrices
Returns the consensus matrix computed while performing all NMF runs, amongst which 'object' was selected as the best fit.
Computes the consensus matrix of the set of fits stored in 'object', as the mean connectivity matrix across runs.
Hierarchical Clustering of a Consensus Matrix
Fade Out the Upper Branches from a Dendrogram
Internal Routine for Fast Combinatorial Nonnegative Least-Squares
Utilities and Extensions for Foreach Loops
Comparing Results from Different NMF Runs
NMF Multiplicative Updates for Kullback-Leibler Divergence
NMF Multiplicative Updates for Euclidean Distance
Transforming from Mixed-sign to Nonnegative Data
NMF Multiplicative Update for Nonsmooth Nonnegative Matrix Factorization (nsNMF).
Returns the objective function associated with the algorithm that computed the fitted NMF model 'object', or the objective value with respect to a given target matrix 'y' if it is supplied.
Returns the offset from the fitted model.
NMF Multiplicative Update for NMF with Offset Models
Plots the residual track computed at regular interval during the fit of the NMF model 'x'.
Flags a Color Palette Specification for Reversion
Residual Sum of Squares and Explained Variance
Returns the CPU time required to compute all NMF fits in the list. It returns 'NULL' if the list is empty. If no timing data are available, the sequential time is returned.
Returns the CPU time used to perform all the NMF fits stored in 'object'.
'NMFSeed' is a constructor method that instantiate 'NMFSeed' objects.
Show method for objects of class 'NMFList'
Show method for objects of class 'NMFOffset'
Show method for objects of class 'NMFSeed'
Show method for objects of class 'NMFStrategyIterative'
Show method for objects of class 'NMFfit'
Show method for objects of class 'NMFfitX'
Show method for objects of class 'NMFfitX1'
Show method for objects of class 'NMFfitXn'
Show method for objects of class 'NMFns'
Smoothing Matrix in Nonsmooth NMF Models
Get/Set a Static Variable in NMF Algorithms
Stopping Criteria for NMF Iterative Strategies