# Quantification of Mitochondrial DNA Heteroplasmy

## Documentation for package ‘MitoHEAR’ version 0.1.0

- DESCRIPTION file.
- User guides, package vignettes and other documentation.

## Help Pages

choose_features_clustering | choose_features_clustering
clustering_angular_distance | clustering_angular_distance
detect_insertion | detect_insertion
dpt_test | dpt_test
filter_bases | filter_bases
get_distribution | get_distribution
get_heteroplasmy | get_heteroplasmy
get_raw_counts_allele | get_raw_counts_allele
get_wilcox_test | get_wilcox_test
plot_allele_frequency | plot_allele_frequency
plot_base_coverage | plot_base_coverage
plot_batch | plot_batch
plot_cells_coverage | plot_cells_coverage
plot_condition | plot_condition
plot_coordinate_cluster | plot_coordinate_cluster
plot_coordinate_heteroplasmy | plot_coordinate_heteroplasmy
plot_correlation_bases | plot_correlation_bases
plot_distance_matrix | plot_distance_matrix
plot_distribution | plot_distribution
plot_dpt | plot_dpt
plot_genome_coverage | plot_genome_coverage
plot_heatmap | plot_heatmap
plot_heteroplasmy | plot_heteroplasmy
plot_heteroplasmy_variability | plot_heteroplasmy_variability
plot_spider_chart | plot_spider_chart
vi_comparison | vi_comparison We compute the variation of information (VI) between the partition provided by _new_classification_ and _old_classification_. The VI between a random partitions (obtained with re-shuffle from original labels in _old_classification_) and _old_classification_ is also computed. A distribution of VI values from random partitions is built. Finally, from the comparison with this distribution, an empirical p value is given to the VI of the unsupervised cluster analysis.