# Single-cell Mitochondrial Mutation Analysis Tool

## Documentation for package ‘scMitoMut’ version 1.8.0

- DESCRIPTION file
- User guides, package vignettes and other documentation
- Package NEWS
- Package README

## Help Pages

scMitoMut-package | scMitoMut
export_af | Export the mutation matrix
export_binary | Export the mutation matrix
export_df | Export the mutation matrix
export_dt | Export the mutation matrix
export_pval | Export the mutation matrix
filter_loc | Filter mutations
format.mtmutObj | Print mtmutObj object
get_pval | Get p-value list for single locus
is.mtmutObj | Print mtmutObj object
open_h5_file | Open H5 file
parse_mgatk | Load mtGATK output
parse_table | Load allele count table
plot_af_coverage | QC plot: 2D scatter plot for coverage ~ AF
plot_heatmap | Heatmap plot
print.mtmutObj | Print mtmutObj object
process_locus_bmbb | Fit tree models for one locus
rm_mtmutObj | Remove mtmutObj object
run_model_fit | Fit binomial mixture model for every candidate locus
scMitoMut | scMitoMut
subset_cell | Subset cell and loci
subset_loc | Subset cell and loci