findStutter-stringCoverageGenotypeList-method: Find stutters

In STRMPS: Analysis of Short Tandem Repeat (STR) Massively Parallel Sequencing (MPS) Data

Description

Given identified alleles it search for '-1' stutters of the alleles.

Usage

  ## S4 method for signature 'stringCoverageGenotypeList'
findStutter(stringCoverageGenotypeListObject,
  trace = FALSE)

Arguments

stringCoverageGenotypeListObject	A stringCoverageGenotypeList-class object.
trace	Should a trace be shown?

Value

A 'neighbourList' with the stutter strings for the identified allele regions.

Examples

# The object returned by merging a stringCoverageList-Object
# and a genotypeList-Object.
data("stringCoverageGenotypeList")

stutterList <- findStutter(stringCoverageGenotypeList)
stutterTibble <- subset(do.call("rbind", stutterList), !is.na(Genotype))

stutterTibble$BlockLengthMissingMotif
stutterTibble$NeighbourRatio

STRMPS documentation built on May 2, 2019, 3:35 a.m.