├── DESCRIPTION ├── MD5 ├── NAMESPACE ├── NEWS ├── R ├── bayes.R ├── extract.R ├── fit.R ├── gcstats.R ├── graphics.R ├── misc.R ├── model.R ├── mutations.R ├── read.R ├── results.R ├── segments.R ├── solutions.R └── windows.R ├── data ├── CP.example.RData └── example.seqz.rda ├── inst ├── CITATION ├── doc │ ├── sequenza.R │ ├── sequenza.Rmd │ └── sequenza.html └── extdata │ ├── example.seqz.txt.gz │ └── example.seqz.txt.gz.tbi ├── man ├── CP.data.Rd ├── baf.model.fit.Rd ├── bayes.Rd ├── breaks.Rd ├── chromosome.view.Rd ├── cp.plot.Rd ├── example.seqz.Rd ├── gc.Rd ├── model_points.Rd ├── mutations.Rd ├── plotWindows.Rd ├── read_seqz.Rd ├── theoretical.Rd ├── type_matrix.Rd ├── windowValues.Rd └── workflow.Rd ├── tests ├── testthat.R └── testthat │ ├── test.model.R │ └── test.read.R └── vignettes └── sequenza.Rmd /DESCRIPTION: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/cran/sequenza/HEAD/DESCRIPTION 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