stringCoverage.control: String coverage coontrol object

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

Description

String coverage coontrol object

Usage

stringCoverage.control(motifLength = 4, Type = "AUTOSOMAL",
  simpleReturn = TRUE, includeLUS = FALSE, numberOfThreads = 4L,
  meanFunction = mean, includeAverageBaseQuality = FALSE, trace = FALSE,
  uniquelyAssigned = TRUE)

Arguments

motifLength	The motif lengths of each marker.
Type	The chromosome type of each marker (autosomal, X, or Y).
simpleReturn	TRUE/FALSE: Should the returned object be simplified?
includeLUS	TRUE/FALSE: Should the LUS of each region be calculated?
numberOfThreads	The number of cores used for parallelisation.
meanFunction	The function used to average the base qualities.
includeAverageBaseQuality	Should the average base quality of the region be included?
trace	TRUE/FALSE: Show trace?
uniquelyAssigned	TRUE/FALSE: Should regions not uniquely assigned be removed?

Details

Control function for the 'stringCoverage' function. Sets default values for the parameters.

Value

List of parameters used for the 'stringCoverage' function.

svilsen/STRMPS documentation built on May 31, 2019, 7:55 a.m.