makeModelFile: Make a parsimony model file
In dowser: B Cell Receptor Phylogenetics Toolkit

View source: R/TreeFunctions.R

makeModelFile

R Documentation

Make a parsimony model file

Description

makeModelFile Filler

Usage

makeModelFile(file, states, constraints = NULL, exceptions = NULL)

Arguments

`file`	model file name to write.
`states`	vector of states to include in model.
`constraints`	constraints to add to model.
`exceptions`	vector of comma-separated states that are exceptions to constraints

Details

Currently the only option for constraints is "irrev", which forbids switches moving from left to right in the states vector.

Value

Name of model file

See Also

readModelFile, getTrees, findSwitches

dowser documentation built on May 29, 2024, 3:06 a.m.

dowser index

Package overview README.md Building trees with paired heavy and light chain data Build Lineage Trees Discrete Trait Analysis Measurable evolution Plotting Lineage Trees Quickstart Reconstruct Clonal Germlines Reconstruct Intermediate Sequences Build B cell lineage trees Building trees with paired heavy and light chain data Detect ongoing B cell evolution Discrete trait analysis Dowser: Simple lineage tree construction Plot B cell lineage trees Reconstruct clonal germline sequences Reconstruct intermediate sequences

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