ccube_m6: Run Ccube with model 6: Normal-Binomial. TODO: to be removed...
In keyuan/ccube: ccube

ccube_m6

R Documentation

Run Ccube with model 6: Normal-Binomial. TODO: to be removed in the final release

Description

Run Ccube with model 6: Normal-Binomial. TODO: to be removed in the final release

Usage

ccube_m6(mydata, epi = 0.001, init = 2, prior = NULL, tol = 1e-20,
  maxiter = 1000, fit_mult = F, fit_hyper = T, use = c("use_base",
  "use_one"), verbose = FALSE)

Arguments

`mydata`	mutation data frame
`epi`	sequencing error
`init`	scalar number of clusters, or vector all possible cluster numbers
`prior`	prior parameters
`tol`	VBEM convergence threshold
`maxiter`	VBEM maximum iteration
`fit_mult`	whether or not to estimate multiplicities
`fit_hyper`	whether or not to estimat hyperparameters
`use`	methods to get rough estimates of ccf
`verbose`	show progress