Reference

Available data Data released with the package
fit_example	Example MOBSTER fit.
LU4_lung_sample	MOBSTER fit for the LU4 lung sample.
LUFF76_lung_sample	MOBSTER fit for the LUFF76 lung sample.
cancer_genes_dnds	List of cancer genes to compute dnds values.
Fitting functions Functions to cluster the data; density of a mobster fit and sampling functions.
mobster_fit()	Fit a model with MOBSTER.
choose_clusters()	Filter MOBSTER output clusters.
Clusters()	Return the data with the hard clustering assigments.
Clusters_denovo()	Assign new observations to the clusters inside a MOBSTER fit.
ddbpmm()	Density function for MOBSTER.
rdbpmm()	Generate a random sample from a MOBSTER model.
random_dataset()	Generate a random MOBSTER model and data.
to_string()	Return a tabular representation of a model.
S3 functions The mobster S3 object.
print(<dbpmm>)	Summaries for an object of class 'dbpmm' is like a print.
summary.dbpmm()	Summary for an object of class 'dbpmm' is a print.
plot.dbpmm()	Plot a MOBSTER fit.
Plotting functions These functions can be used to plot data and mobster fits.
plot_NLL()	Plot the NLL trace.
plot_entropy()	Plot the entropy of a MOBSTER mixture.
plot_fit_scores()	Plot the scores for model selection.
plot_gofit()	Plot the goodness of fit.
plot_init()	Plot the initial density of a fit.
plot_latent_variables()	Plot the latent variables of the mixture.
plot_mixing_proportions()	Plot the mixing proportions of the mixture.
plot_model_selection()	Plot summary for model selection.
Bootstrap functions Bootstrap functions for mobster fits, and plotting functions.
mobster_bootstrap()	Bootstrap a MOBSTER fit.
bootstrapped_statistics()	Compute boostrap statistics from a bootstrap run.
plot_bootstrap_Beta()	Plot the boostrapped tail parameters.
plot_bootstrap_coclustering()	Plot the boostrapped co-clustering probability.
plot_bootstrap_mixing_proportions()	Plot the boostrapped mixing proportions
plot_bootstrap_model_frequency()	Plot the boostrapped model frequency
plot_bootstrap_tail()	Plot the boostrapped tail parameters.
Extra features Other analyses for mobster fits.
dnds()	Run a dN/dS analysis on MOBSTER clusters.
evolutionary_parameters()	Extract evolutionary parameters from a MOBSTER fit
get_clone_trees()	Return clone trees from the fit.
load_vcf()	Load data from a VCF file