phyloTree-class {MesKit} | R Documentation

## phyloTree class

### Description

S4 class for storing informations about phylogenetic tree.

### Slots

`patientID`

  patient ID.

`tree`

  a object of class "phylo".

`bootstrap.value`

  a numeric vector of bootstrap values.

`method`

  approach to construct a phylogenetic tree.

`binary.matrix`

  a presense/absent binary matrix of mutations.

`ccf.matrix`

  a ccf matrix of mutations.

`mut.branches`

  a data.frame of mutations per trunk/branch.

`branch.type`

  a data.frame of trunk/branch types based on shared pattern.

`ref.build`

  human reference genome version. Default: 'hg19'. Optional: 'hg18' or 'hg38'.

`tsb.label`

  store relationship between Tumor_Sample_Barcode and Tumor_Sample_Label if Tumor_Sample_Label is provided in clinical data.

[Package MesKit version 1.4.0 Index]