data: Mitochondrial exclusionlist

In benstory/mitoClone2: Clonal Population Identification in Single-Cell RNA-Seq Data using Mitochondrial and Somatic Mutations

Mitochondrial exclusionlist

Description

List of variants that are likely not true somatic mutations and should thus be excluded

M: Mutant allele counts; N: Reference allele counts. P1: Patient 1; P2: Patient 2

Usage

exclusionlists

M_P1

N_P1

M_P2

N_P2

Format

A list with four entries: #'

• three: Regions of the mitochondrial genome that are within 1 nt of a 3-mer homopolymer (e.g. AAA)

• mutaseq: Mutations in the mitochondrial genome that were reoccuring across patients (present in more than one individual in the MutaSeq dataset)

• masked: Regions of the mitochondrial genome that are soft-masked in the UCSC or Ensembl annotations

• rnaEDIT: Regions of the mitochondrial genome that are thought to be subject to RNA-editing according to the REDIportal V2.0

a data frame of variable sites (columns) across single cells (rows)

An object of class data.frame with 1430 rows and 16 columns.

An object of class data.frame with 1430 rows and 16 columns.

An object of class data.frame with 1066 rows and 22 columns.

An object of class data.frame with 1066 rows and 22 columns.

benstory/mitoClone2 documentation built on Oct. 30, 2024, 3:20 p.m.