Function visualises time dependent behaviour of genes in two compared groups. The natural cubic spline regression curves fitted to discrete, time dependent expression data are plotted. One plot shows two curves - representing the reference group and the compared group, respectively. See also
number of degrees of freedom
character defining which treatment group should be considered as reference
vector of genes to plot; defalut is
eSetObject must be provided as an object of class
ExpressionSet which contains
Treatment and if applicable
Replicates variables (columns) included in the phenotypic data of the
pData(eSetObject)). Two types of
Treatment defining two groups to compare have to be definied.
Replicates are not required. The time points for compared treatment groups should be identical.
User has to define number of degrees of freedom (
df) for the spline regression model. Choosing effective degrees of freedom in range 3-5 is reasonable.
Genes to plot, given as a vector of characters, can be selected by the user. Provided names have to be a part of a row name vector of
rownames(exprs(eSetObject))). If genes to plot are not definied, all genes are plotted.
A .pdf file containing plots for chosen genes.
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