Uses of Class
statalign.base.InputData

Packages that use InputData

statalign.base
statalign.model.ext
statalign.model.ext.plugins
statalign.postprocess
statalign.postprocess.plugins
statalign.postprocess.plugins.structalign

Uses of InputData in statalign.base

Fields in statalign.base declared as InputData

InputData

MainManager.inputData Reference to all input data required to run StatAlign

Methods in statalign.base with parameters of type InputData

static java.lang.String[]

Utils.alignmentTransformation(java.lang.String[] s, java.lang.String[] names, java.lang.String type, InputData input) Transforms an alignment into the prescribed format

Uses of InputData in statalign.model.ext

Methods in statalign.model.ext with parameters of type InputData

void	ModelExtManager.initRun(InputData inputData) Determines the list of active ModelExtension plugins.
void	ModelExtension.initRun(InputData inputData) Called during the initialisation of a run if plugin is active.

Uses of InputData in statalign.model.ext.plugins

Methods in statalign.model.ext.plugins with parameters of type InputData

void	StructAlign.initRun(InputData inputData)

Uses of InputData in statalign.postprocess

Methods in statalign.postprocess with parameters of type InputData

void	TreeVisualizer.beforeFirstSample(InputData input)
void	Postprocess.beforeFirstSample(InputData inputData) Called before MCMC start.

Uses of InputData in statalign.postprocess.plugins

Methods in statalign.postprocess.plugins with parameters of type InputData

void	VisualDistance.beforeFirstSample(InputData input)
void	Structure.beforeFirstSample(InputData input)
void	PPFold.beforeFirstSample(InputData input)
void	MpdAlignment.beforeFirstSample(InputData input)
void	LogLikelihoodTrace.beforeFirstSample(InputData input) Initialises the graphical interface.
void	Entropy.beforeFirstSample(InputData input) Initialises the graphical interface.
void	CurrentTreeVisualizer.beforeFirstSample(InputData input)
void	CurrentAlignment.beforeFirstSample(InputData input) Initializes the graphical interface.
void	ConsensusTreeVisualizer.beforeFirstSample(InputData input)
void	ConsensusNetwork.beforeFirstSample(InputData inputData) Initializes the graphical interface.
void	PPFold.selectReferenceSequence(InputData input)

Uses of InputData in statalign.postprocess.plugins.structalign

Methods in statalign.postprocess.plugins.structalign with parameters of type InputData

void	StructTrace.beforeFirstSample(InputData inputData)
void	RmsdTrace.beforeFirstSample(InputData inputData)