LeafRank/DESCRIPTION at main · SunPathLab/LeafRank · GitHub

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Package: LeafRank
Title: Inferring Relative Fitness from Single-Cell Phylogenies in Chromosomally Unstable Tumors
Version: 0.1.0
Authors@R: c(
    person("Zicheng", "Wang", email = "wangzicheng@cuhk.edu.cn",
           role = c("aut", "cre")),
    person("Chenyu", "Wu", email = "wu000766@umn.edu",
           role = "aut"),
    person("Ruping", "Sun", email = "ruping@umn.edu",
           role = "aut"))
Description: LeafRank is a probabilistic framework for single cell phylogeny, inferring the relative fitness of sampled tumor cells. LeafRank takes as input a phylogenetic tree reconstructed from somatic aberrations, including SCNAs detected via single cell DNA-seq data, alongside parameter configurations defined by a multi-type branching process model. The framework  outputs the marginal probability of fitness types for leaf cells, conditioned on the observed tree topology and model configuration.
License: MIT + file LICENSE
Encoding: UTF-8
Roxygen: list(markdown = TRUE)
RoxygenNote: 8.0.0
Imports:
  ape,
  doParallel,
  foreach,
  parallel,
  Brobdingnag,
  expm
Suggests:
  rmarkdown,
  tibble,
  ggtree,
  ggplot2,
  ggtreeExtra,
  R.matlab