realCloneData: Real clone data from human blood

In cloneRate: Estimate Growth Rates from Phylogenetic Trees

Real clone data from human blood

Description

42 clones (39 distinct) from 32 individual donors, 13 of whom have a diagnosis of Myeloproliferative Neoplasm

Usage

data(realCloneData)

Format

A list of containing one list with the full ultrametric trees from 30 of the 32 individual donors (the two from Van Egeren are not included), and one list containing the 42 clone trees.In three cases, there are two timepoints from the same clone, and these are separate phylo objects. Each list contains a tree as a class phylo object. See ape package documentation for details on class phylo objects. Names of each phylo object (tree) in the list matches the naming used in the sources and also includes driver, age, and clone number.

References

These datasets were generated and annotated in: Williams et al. 2022 Mitchell et al. 2022 Fabre et al. 2022 Van Egeren et al. 2021

Examples

# Plot full reconstructed tree from donor PD34493
ape::plot.phylo(cloneRate::realCloneData[["fullTrees"]][["PD34493"]],
  direction = "downwards", show.tip.label = FALSE
)

cloneRate documentation built on Sept. 22, 2023, 5:09 p.m.