Run NMF Methods and Generate a Report

Description

Generates an HTML report from running a set of method on a given target matrix, for a set of factorization ranks.

Usage

nmfReport(x, rank, method, colClass = NULL, ..., output = NULL, template = NULL)

Arguments

x
target matrix
rank
factorization rank
method
list of methods to apply
colClass
reference class to assess accuracy
...
extra paramters passed to nmf
output
output HTML file
template
template Rmd file

Value

a list with the following elements: fitsthe fit(s) for each method and each value of the rank. accuracya data.frame that contains the summary assessment measures, for each fit.

Details

The report is based on an .Rmd document 'report.Rmd' stored in the package installation sub-directory scripts/, and is compiled using knitr.

At the beginning of the document, a file named 'functions.R' is looked for in the current directory, and sourced if present. This enables the definition of custom NMF methods (see setNMFMethod) or setting global options.

Examples



## Not run: 
##D 
##D x <- rmatrix(20, 10)
##D gr <- gl(2, 5)
##D nmfReport(x, 2:4, method = list('br', 'lee'), colClass = gr, nrun = 5)
##D 
## End(Not run)