BcDiag (version 1.0.2)

exploreOnlybic: The exploreOnlybic function

Description

Provides exploratory plots only for biclusterd.

Usage

exploreOnlybic(dset, bres, fit= "all", gby= "genes", mname="biclust",bnum=1)

Arguments

dset

Data matrix.

bres

Bicluster result.

gby

group bicluster; 'genes' or 'conditions'.

fit

fit a plot for 'mean', 'median', 'variance', 'mad', 'all', or 'quantile'.

mname

Method name; 'biclust', 'isa2' or 'fabia'

bnum

Existed biclusters; '1','2'...

Value

• Summary plot will display only for biclusterd data.

Details

The exploreOnlybic function has similar function with exploreBic. the only difference is, it provides exploratory plots only for biclusterd data. It provides summary plots for 'mean' 'median', 'variance', 'mad' and 'quantile plot'.

References

Van't Veer, L.J., Dai, H., van de Vijver, M.J., He, Y.D., Hart, A.A. et al. (2002). Gene expression profiling predicts clinical outcome of breast cancer,Nature, 415, 530-536. Hochreiter, S., Bodenhofer, U., Heusel, M.et al. (2010).FABIA: factor analysis for bicluster acquisition. Bioinformatices, 26, 1520-1527.

See Also

exploreBic

Examples

data(breastc)
# find bicluster using biclust algorithm
bic<- biclust(breastc,method=BCPlaid())
# Plot the median of biclusterd data.
exploreOnlybic(dset=breastc,bres=bic,fit="all",gby="genes",mname="biclust",bnum=1)