veltenlab/mitoClone: Clonal tracking in single-cell RNA-seq data using mitochondrial and somatic mutations

This package identifies somatic variants in mitochondrial genomes from aligned BAM files; filters these variants to remove RNA editing events; estimates their evolutionary relationship (i.e. their phylogenetic tree); and finally groups single cells into clones using a probabilistic approach.

install.packages("remotes")
remotes::install_github("veltenlab/mitoClone")