mergeGenotypeStringCoverage-genotypeIdentifiedList-method: Merge genotypeIdentifiedList and stringCoverageList.

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

Merge genotypeIdentifiedList and stringCoverageList.

Description

mergeGenotypeStringCoverage merges genotypeIdentifiedList-objects and stringCoverageList-objects.

Usage

## S4 method for signature 'genotypeIdentifiedList'
mergeGenotypeStringCoverage(
  stringCoverageListObject,
  noiseGenotypeIdentifiedListObject
)

Arguments

stringCoverageListObject	a stringCoverageList-object, created using the stringCoverage-function.
noiseGenotypeIdentifiedListObject	a noiseGenotypeIdentifiedList-object, created using the getGenotype-function.

Value

Returns a list, with an element for every marker in extractedReadsList-object, each element contains the string coverage of all unique strings of a given marker.

Examples

# Strings aggregated by 'stringCoverage()'
data("stringCoverageList")
# Genotypes identified by 'getGenotype()'
data("genotypeList")
# Noise identified by 'identifyNoise()'
data("noiseList")

mergeGenotypeStringCoverage(stringCoverageList, genotypeList)
mergeNoiseStringCoverage(stringCoverageList, noiseList)

svilsen/STRMPS documentation built on Feb. 22, 2025, 4:51 p.m.