fit_growth_rates: Infer growth rates for each clone and subclone.
In caravagnalab/lineaGT: lineaGT

fit_growth_rates

R Documentation

Infer growth rates for each clone and subclone.

Description

Infer growth rates for each clone and subclone.

Usage

fit_growth_rates(
  x,
  steps = 500,
  highlight = c(),
  timepoints_to_int = c(),
  growth_model = "exp.log",
  force = T,
  tree_score = 1,
  py_pkg = NULL,
  mutations = F
)

Arguments

`x`	a mvnmm object.
`steps`	maximum number of steps for inference.
`highlight`	set of clusters to run the inference for. If not specified, it will be run on all the clusters.
`timepoints_to_int`	if the provided timepoints are not integers nor a timepoints-to-int list is stored in `x`, a list mapping their values to integers is required.
`growth_model`	string specifying the type of growth model to use, between `exp` and `log` corresponding to exponential and logistic models, respectively.
`force`	if the model has already been fitted, setting `force` to `FALSE` will keep the computed rates. Setting `force` to `TRUE` will fit the model again for the specified clusters.