OutputParams: Create OutputParams object

In retrocombinator: Simulating the Molecular Evolutionary Process of Retrotransposon Recombination

Description

Create OutputParams object

Usage

OutputParams(
  outputFilename = "simulationOutput.out",
  outputNumInitialDistance = 10,
  outputNumPairwiseDistance = 10,
  outputNumFamilyLabels = 10,
  outputNumFamilyMatrix = 10,
  outputMinSimilarity = 0.5
)

Arguments

outputFilename	Where should the results of the simulation be saved? (This can be parsed by input_file)
outputNumInitialDistance	How many times across the simulation will we output the distance of each sequence to the initial sequence
outputNumPairwiseDistance	How many times across the simulation will we output the pairwise distance between all pairs of sequences
outputNumFamilyLabels	How many times across the simulation will we output the representative sequences for each family?
outputNumFamilyMatrix	How many times across the simulation will we output the pairwise distances between family representatives?
outputMinSimilarity	What is the minimum similarity between two sequences we should report on?

Value

A bundling of the parameters given to it as a SimulationParams object

Examples

outputParams <- OutputParams(outputFilename = 'myOutputFilename.out')

retrocombinator documentation built on Nov. 12, 2021, 1:07 a.m.