Oncotree: Estimating oncogenetic trees

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Contains functions to construct and evaluate directed tree structures that model the process of occurrence of genetic alterations during carcinogenesis.

Author
Aniko Szabo, Lisa Pappas
Date of publication
2013-12-10 21:28:47
Maintainer
Aniko Szabo <aszabo@mcw.edu>
License
GPL (>=2)
Version
0.3.3

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Man pages

ancestors
Find ancestors within an oncogenetic tree.
bootstrap.oncotree
Bootstrap an oncogenetic tree to assess stability
build.parent
Undocumented internal functions for the Oncotree package
distribution.oncotree
Find the event distribution defined by an oncogenetic tree
error.rates_-
Set the error rates of an oncotree manually
generate.data
Generate random data from an oncogenetic tree
oncotree.fit
Build and display an oncogenetic tree
Oncotree-package
Constructing and evaluating oncogenetic trees
ov.cgh
Ovarian cancer CGH data

Files in this package

Oncotree/DESCRIPTION
Oncotree/NAMESPACE
Oncotree/R
Oncotree/R/ancestors.R
Oncotree/R/bootstrap.oncotree.R
Oncotree/R/build.parent.R
Oncotree/R/build.plot.R
Oncotree/R/distribution.oncotree.R
Oncotree/R/error.rates_-.R
Oncotree/R/format.data.R
Oncotree/R/generate.data.R
Oncotree/R/joint.distr.R
Oncotree/R/least.common.ancestor.R
Oncotree/R/marginal.distr.R
Oncotree/R/oncotree.fit.R
Oncotree/R/plot.boottree.R
Oncotree/R/plot.oncotree.R
Oncotree/R/print.boottree.R
Oncotree/R/print.oncotree.R
Oncotree/R/pstree.oncotree.R
Oncotree/build
Oncotree/build/vignette.rds
Oncotree/data
Oncotree/data/ov.cgh.rda
Oncotree/inst
Oncotree/inst/doc
Oncotree/inst/doc/Oncotree.pdf
Oncotree/inst/doc/Oncotree_vignette.R
Oncotree/inst/doc/Oncotree_vignette.Rnw
Oncotree/inst/doc/Oncotree_vignette.pdf
Oncotree/man
Oncotree/man/Oncotree-package.Rd
Oncotree/man/ancestors.Rd
Oncotree/man/bootstrap.oncotree.Rd
Oncotree/man/build.parent.Rd
Oncotree/man/distribution.oncotree.Rd
Oncotree/man/error.rates_-.Rd
Oncotree/man/generate.data.Rd
Oncotree/man/oncotree.fit.Rd
Oncotree/man/ov.cgh.Rd
Oncotree/vignettes
Oncotree/vignettes/Oncotree_vignette.Rnw
Oncotree/vignettes/PlotForVignette.pdf