Uses of Class mpicbg.models.Tile (Fiji Javadocs 0-SNAPSHOT API)

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Packages that use Tile
Package	Description
mpicbg.models
mpicbg.spim.mpicbg
mpicbg.spim.registration.detection
mpicbg.stitching
mpicbg.trakem2.align
org.janelia.intensity
process
spim.process.interestpointregistration
spim.process.interestpointregistration.optimizationtypes

Uses of Tile in mpicbg.models

Fields in mpicbg.models with type parameters of type Tile
Modifier and Type	Field and Description
`protected Set<Tile<?>>`	Tile.`connectedTiles` A set of `Tiles` that share point correpondences with this `Tile`.
`protected HashSet<Tile<?>>`	TileConfiguration.`fixedTiles`
`protected HashSet<Tile<M>>`	ElasticMovingLeastSquaresMesh.`fixedTiles`
`protected HashMap<PointMatch,Tile<M>>`	MovingLeastSquaresMesh.`pt` Tiles are a collection of PointMatches that share a common transformation model.
`protected HashSet<Tile<?>>`	TileConfiguration.`tiles`

Methods in mpicbg.models that return Tile
Modifier and Type	Method and Description
`Tile<M>`	MovingLeastSquaresMesh.`findClosest(double[] there)` What to use this method for: If you want to add a PointMatch between two Tiles t and o do the following.
`Tile<?>`	Tile.`findConnectedTile(PointMatch match)` Try to find the tile which is connected by a particular `PointMatch`.

Methods in mpicbg.models that return types with arguments of type Tile
Modifier and Type	Method and Description
`Set<Tile<?>>`	Tile.`getConnectedTiles()`
`HashSet<Tile<?>>`	TileConfiguration.`getFixedTiles()`
`HashSet<Tile<?>>`	TileConfiguration.`getTiles()`
`HashMap<PointMatch,Tile<M>>`	MovingLeastSquaresMesh.`getVerticeModelMap()`
`static ArrayList<Set<Tile<?>>>`	Tile.`identifyConnectedGraphs(Collection<? extends Tile<?>> tiles)` Identify the set of connected graphs that contains all given tiles.
`List<Tile<?>>`	TileConfiguration.`preAlign()` Computes a pre-alignemnt of all non-fixed `Tile`s by propagating the pairwise models.

Methods in mpicbg.models with parameters of type Tile
Modifier and Type	Method and Description
`boolean`	Tile.`addConnectedTile(Tile<?> t)` Add a `Tile` to the set of connected tiles.
`void`	TileConfiguration.`addTile(Tile<?> t)` Add a single `Tile`.
`void`	Tile.`connect(Tile<?> o, Collection<PointMatch> m)` Connect two tiles by a set of point correspondences
`void`	TileConfiguration.`fixTile(Tile<?> t)` Fix a single `Tile`.
`void`	ElasticMovingLeastSquaresMesh.`fixTile(Tile<M> t)`
`ArrayList<PointMatch>`	TileConfiguration.`getConnectingPointMatches(Tile<?> targetTile, Tile<?> referenceTile)` Returns an `ArrayList` of `PointMatch` that connect the targetTile and the referenceTile.
`ArrayList<PointMatch>`	TileConfiguration.`getConnectingPointMatches(Tile<?> targetTile, Tile<?> referenceTile)` Returns an `ArrayList` of `PointMatch` that connect the targetTile and the referenceTile.
`boolean`	Tile.`removeConnectedTile(Tile<?> t)` Remove a `Tile` from the set of connected `Tile`s.

Method parameters in mpicbg.models with type arguments of type Tile
Modifier and Type	Method and Description
`void`	TileConfiguration.`addTiles(Collection<? extends Tile<?>> t)` Add a `Collection` of `Tiles`.
`static Iterable<Tile<?>[]>`	TileUtil.`generateIndependentGroups(Set<Tile<?>> tiles, int maxArrayElements)` Returns a lazy collection of arrays of `Tile`, where none of the tiles of one specific array are connected to any of the tiles in that same array.
`static ArrayList<Set<Tile<?>>>`	Tile.`identifyConnectedGraphs(Collection<? extends Tile<?>> tiles)` Identify the set of connected graphs that contains all given tiles.
`static void`	TileUtil.`optimizeConcurrently(ErrorStatistic observer, double maxAllowedError, int maxIterations, int maxPlateauwidth, double damp, TileConfiguration tc, Set<Tile<?>> tiles, Set<Tile<?>> fixedTiles, int nThreads)`
`static void`	TileUtil.`optimizeConcurrently(ErrorStatistic observer, double maxAllowedError, int maxIterations, int maxPlateauwidth, double damp, TileConfiguration tc, Set<Tile<?>> tiles, Set<Tile<?>> fixedTiles, int nThreads)`
`protected void`	Tile.`traceConnectedGraph(Set<Tile<?>> graph)` Find all `Tile`s that represent one connectivity graph by recursively tracing the `connectedTiles`.

Uses of Tile in mpicbg.spim.mpicbg

Subclasses of Tile in mpicbg.spim.mpicbg
Modifier and Type	Class and Description
`class`	`TileSPIM<M extends AbstractAffineModel3D<M>>`

Methods in mpicbg.spim.mpicbg that return types with arguments of type Tile
Modifier and Type	Method and Description
`List<Tile<?>>`	TileConfigurationSPIM.`preAlign()` Computes a pre-alignemnt of all non-fixed `Tile`s by propagating the pairwise models.

Methods in mpicbg.spim.mpicbg with parameters of type Tile
Modifier and Type	Method and Description
`ArrayList<PointMatch>`	TileConfigurationSPIM.`getConnectingPointMatches(Tile<?> targetTile, Tile<?> referenceTile)` Returns an `ArrayList` of `PointMatch` that connect the targetTile and the referenceTile.
`ArrayList<PointMatch>`	TileConfigurationSPIM.`getConnectingPointMatches(Tile<?> targetTile, Tile<?> referenceTile)` Returns an `ArrayList` of `PointMatch` that connect the targetTile and the referenceTile.

Uses of Tile in mpicbg.spim.registration.detection

Methods in mpicbg.spim.registration.detection with parameters of type Tile
Modifier and Type	Method and Description
`static <T extends AbstractDetection<T>> void`	DetectionRegistration.`addPointMatches(ArrayList<PointMatchGeneric<T>> correspondences, Tile<?> tileA, Tile<?> tileB)`
`static <T extends AbstractDetection<T>> void`	DetectionRegistration.`addPointMatches(ArrayList<PointMatchGeneric<T>> correspondences, Tile<?> tileA, Tile<?> tileB)`

Uses of Tile in mpicbg.stitching

Subclasses of Tile in mpicbg.stitching
Modifier and Type Class and Description

class ImagePlusTimePoint

Fields in mpicbg.stitching declared as Tile
Modifier and Type Field and Description

protected Tile<?> TileConfigurationStitching.worstTile

Methods in mpicbg.stitching that return Tile
Modifier and Type Method and Description

Tile TileConfigurationStitching.getWorstTile()

Uses of Tile in mpicbg.trakem2.align

Subclasses of Tile in mpicbg.trakem2.align
Modifier and Type	Class and Description
`class`	`AbstractAffineTile2D<A extends Model<A> & Affine2D<A>>`
`class`	`AffineTile2D`
`class`	`GenericAffineTile2D<A extends Model<A> & Affine2D<A>>`
`class`	`RigidTile2D`
`class`	`SimilarityTile2D`
`class`	`TranslationTile2D`

Methods in mpicbg.trakem2.align with parameters of type Tile
Modifier and Type	Method and Description
`void`	AbstractAffineTile2D.`commonPointMatches(Tile<?> other, Collection<PointMatch> commonMatches)` Extract the common PointMatches of two tiles.

Uses of Tile in org.janelia.intensity

Methods in org.janelia.intensity that return types with arguments of type Tile
Modifier and Type	Method and Description
`protected static <T extends Model<T> & Affine1D<T>> HashMap<Patch,ArrayList<Tile<T>>>`	MatchIntensities.`generateCoefficientsTiles(Collection<Patch> patches, T template, int nCoefficients)`

Methods in org.janelia.intensity with parameters of type Tile
Modifier and Type	Method and Description
`protected static void`	MatchIntensities.`identityConnect(Tile<?> t1, Tile<?> t2, double weight)`
`protected static void`	MatchIntensities.`identityConnect(Tile<?> t1, Tile<?> t2, double weight)`

Uses of Tile in process

Methods in process with parameters of type Tile
Modifier and Type	Method and Description
`static void`	Matching.`addPointMatches(ArrayList<PointMatch> correspondences, Tile<?> tileA, Tile<?> tileB)`
`static void`	Matching.`addPointMatches(ArrayList<PointMatch> correspondences, Tile<?> tileA, Tile<?> tileB)`

Uses of Tile in spim.process.interestpointregistration

Methods in spim.process.interestpointregistration that return types with arguments of type Tile
Modifier and Type	Method and Description
`protected static <M extends Model<M>> HashMap<ViewId,Tile<M>>`	GlobalOpt.`assignViewsToTiles(M model, List<ViewId> views, boolean considerTimePointsAsUnit)`
`static <M extends Model<M>> HashMap<ViewId,Tile<M>>`	GlobalOpt.`compute(M model, GlobalOptimizationType registrationType, GlobalOptimizationSubset subset, boolean considerTimePointsAsUnit)` Computes a global optimization based on the corresponding points

Methods in spim.process.interestpointregistration with parameters of type Tile
Modifier and Type	Method and Description
`protected static void`	GlobalOpt.`addPointMatches(ArrayList<PointMatchGeneric<Detection>> correspondences, Tile<?> tileA, Tile<?> tileB)`
`protected static void`	GlobalOpt.`addPointMatches(ArrayList<PointMatchGeneric<Detection>> correspondences, Tile<?> tileA, Tile<?> tileB)`

Method parameters in spim.process.interestpointregistration with type arguments of type Tile
Modifier and Type	Method and Description
`protected static <M extends Model<M>> TileConfiguration`	GlobalOpt.`addAndFixTiles(List<ViewId> views, HashMap<ViewId,Tile<M>> map, GlobalOptimizationType registrationType, GlobalOptimizationSubset subset, boolean considerTimePointsAsUnit)`

Uses of Tile in spim.process.interestpointregistration.optimizationtypes

Method parameters in spim.process.interestpointregistration.optimizationtypes with type arguments of type Tile
Modifier and Type	Method and Description
`protected <M extends Model<M>> AffineTransform3D`	GlobalOptimizationSubset.`computeMapBackModel(HashMap<ViewId,Tile<M>> tiles, GlobalOptimizationType type, SpimData2 spimData)`

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