get_mutation_read_names: Gets names of the reads showing reference and alternative...
In alkodsi/ctDNAtools: Analyze Circulating Tumor DNA Sequencing Data

Extract the names of the reads in a bam file that support the variant allele of a single mutation

get_mutation_read_names(
  bam,
  chr,
  pos,
  ref,
  alt,
  tag = "",
  min_base_quality = 20,
  min_mapq = 30
)

`bam`	path to bam file.
`chr`	Chromosome name for the mutation.
`pos`	Chromosome position for the mutation.
`ref`	The reference allele of the mutation.
`alt`	The alternative allele of the mutation.
`tag`	the RG tag if the bam has more than one sample.
`min_base_quality`	integer specifying the minimum base quality for reads to be included.
`min_mapq`	integer specifying the minimum mapping quality for reads to be included.