Uses of Interface
info.bioinfweb.libralign.pherogram.provider.PherogramProvider

Packages that use PherogramProvider

Package	Description
info.bioinfweb.libralign.pherogram	Contains classes related to storing and displaying a trace file from Sanger sequencing.
info.bioinfweb.libralign.pherogram.distortion
info.bioinfweb.libralign.pherogram.model	Contains PherogramProvider and its implementations.
info.bioinfweb.libralign.pherogram.provider	Contains PherogramProvider and its implementations.

Uses of PherogramProvider in info.bioinfweb.libralign.pherogram

Methods in info.bioinfweb.libralign.pherogram with parameters of type PherogramProvider

Modifier and Type	Method and Description
static int	PherogramUtils.getFirstTracePosition(PherogramProvider provider, int baseCallIndex) Returns the index of the first trace value in the area of a trace curve belonging the base call with the specified index.

Uses of PherogramProvider in info.bioinfweb.libralign.pherogram.distortion

Constructors in info.bioinfweb.libralign.pherogram.distortion with parameters of type PherogramProvider

Constructor and Description
UnscaledPherogramDistortion(double horizontalScale, PherogramProvider provider)

Uses of PherogramProvider in info.bioinfweb.libralign.pherogram.model

Methods in info.bioinfweb.libralign.pherogram.model that return PherogramProvider

Modifier and Type	Method and Description
PherogramProvider	PherogramProviderChangeEvent.getNewProvider() Returns the pherogram provider after before this event occurred.
PherogramProvider	PherogramProviderChangeEvent.getOldProvider() Returns the pherogram provider used before this event occurred.
PherogramProvider	PherogramComponentModel.getPherogramProvider()

Methods in info.bioinfweb.libralign.pherogram.model with parameters of type PherogramProvider

Modifier and Type	Method and Description
protected void	PherogramComponentModel.firePherogramProviderChanged(PherogramProvider oldProvider, boolean reverseComplemented, boolean moreEventsUpcoming)
void	PherogramComponentModel.setProvider(PherogramProvider pherogramProvider) Sets a new pherogram provider and fires according events.

Constructors in info.bioinfweb.libralign.pherogram.model with parameters of type PherogramProvider

Constructor and Description
PherogramAreaModel(PherogramProvider provider) Creates a new instance of this class.
PherogramComponentModel(PherogramProvider pherogramProvider) Creates a new instance of this class without any cut off pherogram ends.
PherogramComponentModel(PherogramProvider pherogramProvider, int leftCutPosition, int rightCutPosition) Creates a new instance of this class.
PherogramProviderChangeEvent(PherogramComponentModel source, boolean moreEventsUpcoming, PherogramProvider oldProvider, PherogramProvider newProvider, boolean reverseComplemented) Creates a new instance of this class.

Uses of PherogramProvider in info.bioinfweb.libralign.pherogram.provider

Classes in info.bioinfweb.libralign.pherogram.provider that implement PherogramProvider

Modifier and Type	Class and Description
class	BioJavaPherogramProvider Adapter class that provides the contents of any implementation of Chromatogram from BioJava 1 as a PherogramProvider.
class	ReverseComplementPherogramProvider Pherogram model that allows to view another model instance reverse complemented.

Methods in info.bioinfweb.libralign.pherogram.provider that return PherogramProvider

Modifier and Type	Method and Description
PherogramProvider	BioJavaPherogramProvider.reverseComplement() Returns a new instance of this class which uses the reverse complemented version of the underlying BioJava 1 chromatogram.
PherogramProvider	PherogramProvider.reverseComplement() Returns a reverse complemented view of this model.
PherogramProvider	ReverseComplementPherogramProvider.reverseComplement() Returns the source instance.

Constructors in info.bioinfweb.libralign.pherogram.provider with parameters of type PherogramProvider

Constructor and Description
ReverseComplementPherogramProvider(PherogramProvider source) Creates a new instance of this class.