Usage
profileBic(dset, bres, mname = c("fabia", "isa2", "biclust","bicare"), bplot = "all",
gby = "genes", bnum = 1, teta = 120, ph = 30, fabia.thresZ=0.5,fabia.thresL=NULL,
BClabel=TRUE,gene.lines=NULL,condition.lines=NULL)
Arguments
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 mname="fabia"
. Threshold for sample belonging to bicluster; default 0.5.
fabia.thresL
Bicluster threshold for mname="fabia"
. Threshold for loading belonging to bicluster (if not given it is estimated).
BClabel
TRUE
/FALSE
to show BC labels on the lines plot.
gene.lines
Vector of indices or names of genes inside of Bicluster bnum
. These gene profiles will be highlighted in the line plot (bplot='lines'
).
condition.lines
Vector of indices or names of conditions inside of Bicluster bnum
. These condition profiles will be highlighted in the line plot (bplot='lines'
).