Allows to set the false positive and false negative error rate associated with an object of class oncotree to values other than those found by the optimization in oncotree.fit. The estimated edge transition probabilities are updated appropriately.
oncotree
(Package: Oncotree) :
Build and display an oncogenetic tree
Build a directed tree structure to model the process of occurrence of genetic alterations (events) in carcinogenesis. The model is described in more detail in Oncotree-package. Methods for printing a short summary, displaying the tree on an R plot, and producing latex code for drawing the tree (using the ‘pstricks’ and ‘pst-tree’ LaTeX packages) are provided.
● Data Source:
CranContrib
● Keywords: graphs, hplot, models, tree
● Alias: oncotree.fit, plot.oncotree, print.oncotree, pstree.oncotree
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2 images
distribution.oncotree calculates the joint distribution of the events defined by the tree, while marginal.distr calculates the marginal probability of occurrence of each event.
ancestors
(Package: Oncotree) :
Find ancestors within an oncogenetic tree.
ancestors finds all the ancestors of the given vertex within the tree starting from itself up to the root. least.common.ancestor finds the common ancestor of two vertices that is closest to them (and farthest from the root).
bootstrap
(Package: Oncotree) :
Bootstrap an oncogenetic tree to assess stability
bootstrap.oncotree provides a set of resampling based estimates of the oncogenetic tree. Both a parametric and non-parametric approach is available. The print and plot methods provide interfaces for printing a summary and plotting the resulting set of trees.
providing 
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