- sourceObj
a SourceSetObj
objects, i.e. the output of the sourceSet
function
- name.graphs
the graphs names to be visualized. Default value is names(sourceObj)
- map.name.variable
a list of customized labels to be associated with the names of the genes. Each list element must contain only one value (i.e. the new label), and the name of each element must be associated with the names of the genes given as input to the sourceSet
function (column names of data
input argument). If a label is not mapped, the original name is used
- label.variable
title of the variable axis
- label.graph
title of the graph axis
- subname.variable
number of characters of the variable names labels to show. The function cuts the name at the first str.split
character that doesn't exceed subname.variable
- subname.graph
number of characters of the graph names labels to show. The function cuts the name at the first str.split
character that doesn't exceed subname.variable
- maxnum.variable
maximal number of variables to include in the plot. The variables are sorted internally and only the first maxnum.variable
are be plotted.
- maxnum.graph
maximal number of graphs to include in the plot. The graphs are sorted internally and only the first maxnum.variable
are be plotted.
- title
overall title of the plot
- subtitle
subtitle of the plot
- coord.equal
if TRUE
, forces the scale coordinate system to be equal for the y and x axis. See also coord_fixed
- coord.flip
if TRUE
, flips cartesian coordinates so that horizontal becomes vertical, and vertical, horizontal. Default option sets to x axis the variables, and to the y axis the graphs. See also coord_flip
- strsplit.variable
character containing regular expression to use for cut varibale labels to be shown. More details in subname.variable
and subname.variable
argument descriptions
- strsplit.graph
character containing regular expression to use for cut graph labels to be shown. More details in subname.variable
and subname.variable
argument descriptions
- col.primary
cell color for the variables responsable of primary dysregulation
- col.secondary
cell color for the variables responsable of secondary dysregulation