Opinionated visualization functions for the hospitraceR package, which provides tools for detecting and analyzing transmission clusters in healthcare settings using whole-genome sequencing data. This package provides functions for plotting phylogenetic trees combined with per-patient location traces, cluster comparison heatmaps, overlap permutation-test figures, and genetic-context summaries.
Installation
hospitraceRVisualize is not available on CRAN yet, but you can install it from GitHub using devtools:
devtools::install_github("theabhirath/hospitraceRVisualize")Documentation
While the full function reference is available in the package documentation, for more detailed examples and vignettes, please visit the main documentation site for hospitraceR.