Description Usage Arguments Details Value Author(s) References Examples
Provides profile plots for biclustered and clustered data.
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dset |
data matrix. |
bres |
biclustering result. |
mname |
method name; 'biclust', 'isa2', 'fabia' or 'bicare'. |
bplot |
types of plots; 'all','lines', 'boxplot', 'histogram' or '3D'. |
gby |
grouped by; 'genes', or 'conditions'. |
bnum |
Existing biclusters; '1','2',... |
teta |
numerical value to rotate the 3D; 0, 90, 180,... |
ph |
numerical value to rotate the 3D; 0, 90, 180,... |
fabia.thresZ |
Bicluster threshold for |
fabia.thresL |
Bicluster threshold for |
BClabel |
|
gene.lines |
Vector of indices or names of genes inside of Bicluster |
condition.lines |
Vector of indices or names of conditions inside of Bicluster |
The profile.bic function checks if all parameters are correctly submitted and then identifies the biclustered and clustered data.
Note that the "biclust"
option for mname
will also accept results from the packages iBBiG and rqubic.
profile.bic(dset, bres, mname="biclust", bplot="all", gby="genes", bnum=1, teta=120, ph=30)
Mengsteab Aregay mycs.zab@gmail.com
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.
Kaiser S. and Leisch F. (2008). A Toolbox for Bicluster Analysis in R. Ludwigstrasse. 33.
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