PRISMA (version 0.1-0)

plot.prismaMF: Generics For PRISMA Objects

Description

Print and plot generic for the PRISMA matrix factorization objects.

Usage

## S3 method for class 'prismaMF':
plot(x, nLines = NULL, baseIndex = NULL, sampleIndex = NULL,
minValue = NULL, noRowClustering = FALSE, noColClustering = FALSE, type
= c("base", "coordinates"), ...)

Arguments

x

Prisma matrix factorization object

nLines

Number of lines that should be plotted

baseIndex

Which bases should be plotted

sampleIndex

Which samples should be plotted

minValue

Cut-off value, i.e., every value smaller than minValue won't be shown

noRowClustering

Don't cluster the rows

noColClustering

Don't cluster the columns

type

Show the base (type = "base", i.e. the $B$ matrix) or show the coordinate (type = "coordinates", i.e. the $C$ matrix).

...

Not used

See Also

estimateDimension, prismaHclust, prismaDuplicatePCA, prismaNMF

Examples

data(asap)
asapDim = estimateDimension(asap)
asapNMF = prismaNMF(asap, asapDim, time=120)
plot(asapNMF, minValue=.2)