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Index. NMF 0.17.6

Algorithms and framework for Nonnegative Matrix Factorization (NMF). Gaujoux R and Seoighe C (2010). “A flexible R package for nonnegative matrix factorization.”. 1), pp. 367. ISSN 1471-2105, http:/ dx.doi.org/10.1186/1471-2105-11-367. Http:/ www.biomedcentral.com/1471-2105/11/367. The NMF package helps realize the potential of Nonnegative Matrix Factorization, especially in bioinformatics, providing easy access to methods that have already yielded new insights in many applications. Basisnames -, basisna...

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Index. NMF 0.17.6 | nmf.r-forge.r-project.org Reviews

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Algorithms and framework for Nonnegative Matrix Factorization (NMF). Gaujoux R and Seoighe C (2010). “A flexible R package for nonnegative matrix factorization.”. 1), pp. 367. ISSN 1471-2105, http:/ dx.doi.org/10.1186/1471-2105-11-367. Http:/ www.biomedcentral.com/1471-2105/11/367. The NMF package helps realize the potential of Nonnegative Matrix Factorization, especially in bioinformatics, providing easy access to methods that have already yielded new insights in many applications. Basisnames -, basisna...

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Index. NMF 0.17.6 | nmf.r-forge.r-project.org Reviews

https://nmf.r-forge.r-project.org

Algorithms and framework for Nonnegative Matrix Factorization (NMF). Gaujoux R and Seoighe C (2010). “A flexible R package for nonnegative matrix factorization.”. 1), pp. 367. ISSN 1471-2105, http:/ dx.doi.org/10.1186/1471-2105-11-367. Http:/ www.biomedcentral.com/1471-2105/11/367. The NMF package helps realize the potential of Nonnegative Matrix Factorization, especially in bioinformatics, providing easy access to methods that have already yielded new insights in many applications. Basisnames -, basisna...

INTERNAL PAGES

nmf.r-forge.r-project.org

1

aheatmap. NMF 0.17.6

http://nmf.r-forge.r-project.org/aheatmap.html

Plots high-quality heatmaps, with a detailed legend and unlimited annotation tracks for both columns and rows. The annotations are coloured differently according to their type (factor or numeric covariate). Although it uses grid graphics, the generated plot is compatible with base layouts such as the ones defined with. Enabling the easy drawing of multiple heatmaps on a single a plot - at last! Numeric matrix of the values to be plotted. An. Rev(sequential hcl(2, h = x, l = c(50, 95) ). When the coluor p...

2

compare-NMF. NMF 0.17.6

http://nmf.r-forge.r-project.org/nmf-compare.html

Comparing Results from Different NMF Runs. The functions documented here allow to compare the fits computed in different NMF runs. The fits do not need to be from the same algorithm, nor have the same dimension. NMFfit) `compare`(object, .) S4. List) `compare`(object, .) S4. NMFList) `summary`(object, sort.by = NULL, select = NULL, .) S4. NMFList,missing) `plot`(x, y, skip = -1, .) S4. NMFrank) `consensusmap`(object, .) S4. List) `consensusmap`(object, layout, Rowv = FALSE, main = names(object), .).

3

advanced-NMF. NMF 0.17.6

http://nmf.r-forge.r-project.org/advanced.html

Advanced Usage of the Package NMF. The functions documented here provide advanced functionalities useful when developing within the framework implemented in the NMF package. Returns the index of the best fit in a list of NMF fit, according to some quantitative measure. The index of the fit with the lowest measure is returned. Whichbest(object, FUN = deviance, .). An NMF model fitted by multiple runs. The function that computes the quantitative measure. Extra arguments passed to.

4

basisnames. NMF 0.17.6

http://nmf.r-forge.r-project.org/dimnames.html

Dimension names for NMF objects. And their respective replacement form allow to get and set the dimension names of the matrix factors in a NMF model. Returns all the dimension names in a single list. Its replacement form. Allows to set all dimension names at once. Provide separate access to each of these dimension names respectively. Their respective replacement form allow to set each dimension names separately. Basisnames(x, .) basisnames(x, .). An object with suitable. Extra argument to allow extension.

5

basis. NMF 0.17.6

http://nmf.r-forge.r-project.org/basis-coef-methods.html

Are S4 generic functions which respectively extract and set the matrix of basis components of an NMF model (i.e. the first matrix factor). And their replacement versions are implemented as pure virtual methods for the interface class. Meaning that concrete NMF models must provide a definition for their corresponding class (i.e. sub-classes of class. Will return the matrix. Are low-level S4 generics that simply return/set coefficient data in an object, leaving some common processing to be performed in.

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Index. NMF 0.17.6

Algorithms and framework for Nonnegative Matrix Factorization (NMF). Gaujoux R and Seoighe C (2010). “A flexible R package for nonnegative matrix factorization.”. 1), pp. 367. ISSN 1471-2105, http:/ dx.doi.org/10.1186/1471-2105-11-367. Http:/ www.biomedcentral.com/1471-2105/11/367. The NMF package helps realize the potential of Nonnegative Matrix Factorization, especially in bioinformatics, providing easy access to methods that have already yielded new insights in many applications. Basisnames -, basisna...

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