This class handles the generation of the points clouds so it is the equivalent of the CellexalVR.AnalysisObjects.GraphGenerator but for point clouds. Instantiates a point cloud prefab or spatial point cloud depending on the dataset. More...

Inheritance diagram for CellexalVR.AnalysisLogic.PointCloudGenerator:

Public Member Functions
PointCloud	CreateNewPointCloud (bool spatial=false)
	Create a new points cloud or spatial point cloud. More...

HistoImage	CreateNewHistoImage (PointCloud parentPC)
	Create a point cloud that also contains a histology image. More...

PointCloud	CreateFromOld (Transform oldPc, bool spatial=true)
	Create a new point cloud based on an existing one. For example when slicing a graph. More...

void	BuildSlices (Transform oldPc, GraphSlice[] newSlices)
	Iterates through the graphslices to create and builds them. More...

void	AddGraphPoint (string cellName, float x, float y, float z)
	Add graph point to the point cloud currently being built. More...

void	AddGraphPoint (string cellName, float x, float y)
	Add graph point to the point cloud currently being built. Sets the z coordinate to zero for a 2D graph. More...

IEnumerator	SpawnPoints (PointCloud pc, PointCloud parentPC, List< Point > points)
	Spawn new points based on the given points and a parent point cloud. Used when slicing. More...

void	SpawnPoints (PointCloud pc)
	Spawn the points and create poisition texture map. More...

PointCloud	FindPointCloud (string pcName)
	Retrieve the point cloud with the given name. More...

void	SpawnPoints (HistoImage hi, PointCloud parentPC)
	Spawn the points of a histology image point cloud. More...

IEnumerator	CreateColorTextureMap (Dictionary< string, float3 > points, HistoImage hi, PointCloud parentCloud)
	Create the texture that handles the color of each point. This texture is sent to the visual effects graph that then colors the points. More...

IEnumerator	CreateColorTextureMap (List< Point > points, PointCloud pc, PointCloud parentCloud)
	Create the texture that handles the color of each point. This texture is sent to the visual effects graph that then colors the points. More...

IEnumerator	CreateColorTextureMap ()
	Create the texture that handles the color of each point. This texture is sent to the visual effects graph that then colors the points. More...

IEnumerator	ReadMetaData (string dir)
	Read meta data file. Previously stored in a meta.cell file but this is when each point belongs to just one cluster in the file. More...

Public Attributes
int	nrOfGraphs = 0

int	mdsFileCount

bool	creatingGraph

float3	minCoordValues

float3	maxCoordValues

float3	longestAxis

float3	scaledOffset

Texture2D	colorMap

Texture2D	alphaMap

Texture2D	clusterMap

Dictionary< int, string >	indToLabelDict = new Dictionary<int, string>()

Dictionary< int, string >	clusterDict = new Dictionary<int, string>()

Dictionary< string, Color >	colorDict = new Dictionary<string, Color>()

Dictionary< string, List< Vector2Int > >	clusters = new Dictionary<string, List<Vector2Int>>()

Dictionary< string, float3 >	scaledCoordinates = new Dictionary<string, float3>()

List< PointCloud >	pointClouds = new List<PointCloud>()

int	pointCount

bool	readingFile

Static Public Attributes
static PointCloudGenerator	instance

const int	textureWidth = 1000

Detailed Description

This class handles the generation of the points clouds so it is the equivalent of the CellexalVR.AnalysisObjects.GraphGenerator but for point clouds. Instantiates a point cloud prefab or spatial point cloud depending on the dataset.

Member Function Documentation

◆ AddGraphPoint() [1/2]

void CellexalVR.AnalysisLogic.PointCloudGenerator.AddGraphPoint	(	string	cellName,
		float	x,
		float	y
	)

Add graph point to the point cloud currently being built. Sets the z coordinate to zero for a 2D graph.

Parameters

cellName
x
y

◆ AddGraphPoint() [2/2]

void CellexalVR.AnalysisLogic.PointCloudGenerator.AddGraphPoint	(	string	cellName,
		float	x,
		float	y,
		float	z
	)

Add graph point to the point cloud currently being built.

Parameters

cellName
x
y
z

◆ BuildSlices()

void CellexalVR.AnalysisLogic.PointCloudGenerator.BuildSlices	(	Transform	oldPc,
		GraphSlice[]	newSlices
	)

Iterates through the graphslices to create and builds them.

Parameters

oldPc
newSlices

◆ CreateColorTextureMap() [1/3]

IEnumerator CellexalVR.AnalysisLogic.PointCloudGenerator.CreateColorTextureMap ( )

Create the texture that handles the color of each point. This texture is sent to the visual effects graph that then colors the points.

Returns

◆ CreateColorTextureMap() [2/3]

IEnumerator CellexalVR.AnalysisLogic.PointCloudGenerator.CreateColorTextureMap	(	Dictionary< string, float3 >	points,
		HistoImage	hi,
		PointCloud	parentCloud
	)

Create the texture that handles the color of each point. This texture is sent to the visual effects graph that then colors the points.

Parameters

points
hi
parentCloud

Returns

◆ CreateColorTextureMap() [3/3]

IEnumerator CellexalVR.AnalysisLogic.PointCloudGenerator.CreateColorTextureMap	(	List< Point >	points,
		PointCloud	pc,
		PointCloud	parentCloud
	)

Create the texture that handles the color of each point. This texture is sent to the visual effects graph that then colors the points.

Parameters

points
pc
parentCloud

Returns

◆ CreateFromOld()

PointCloud CellexalVR.AnalysisLogic.PointCloudGenerator.CreateFromOld	(	Transform	oldPc,
		bool	spatial = `true`
	)

Create a new point cloud based on an existing one. For example when slicing a graph.

Parameters

oldPc
spatial

Returns

◆ CreateNewHistoImage()

HistoImage CellexalVR.AnalysisLogic.PointCloudGenerator.CreateNewHistoImage ( PointCloud parentPC )

Create a point cloud that also contains a histology image.

Parameters

parentPC

Returns

◆ CreateNewPointCloud()

PointCloud CellexalVR.AnalysisLogic.PointCloudGenerator.CreateNewPointCloud ( bool spatial = false )

Create a new points cloud or spatial point cloud.

Parameters

spatial

Returns

◆ FindPointCloud()

PointCloud CellexalVR.AnalysisLogic.PointCloudGenerator.FindPointCloud ( string pcName )

Retrieve the point cloud with the given name.

Parameters

pcName The name of the point cloud.

Returns

◆ ReadMetaData()

IEnumerator CellexalVR.AnalysisLogic.PointCloudGenerator.ReadMetaData ( string dir )

Read meta data file. Previously stored in a meta.cell file but this is when each point belongs to just one cluster in the file.

Parameters

dir

Returns

◆ SpawnPoints() [1/3]

void CellexalVR.AnalysisLogic.PointCloudGenerator.SpawnPoints	(	HistoImage	hi,
		PointCloud	parentPC
	)

Spawn the points of a histology image point cloud.

Parameters

hi
parentPC

◆ SpawnPoints() [2/3]

void CellexalVR.AnalysisLogic.PointCloudGenerator.SpawnPoints ( PointCloud pc )

Spawn the points and create poisition texture map.

Parameters

pc

◆ SpawnPoints() [3/3]

IEnumerator CellexalVR.AnalysisLogic.PointCloudGenerator.SpawnPoints	(	PointCloud	pc,
		PointCloud	parentPC,
		List< Point >	points
	)

Spawn new points based on the given points and a parent point cloud. Used when slicing.

Parameters

pc	The instatiated point cloud the points belongs to.
parentPC	The parent point cloud.
points

Returns

The documentation for this class was generated from the following file:

cellexalvr_cloudxr/Assets/Scripts/AnalysisLogic/PointCloudGenerator.cs

Public Member Functions

Public Attributes

Static Public Attributes

Detailed Description

Member Function Documentation

◆ AddGraphPoint() [1/2]

◆ AddGraphPoint() [2/2]

◆ BuildSlices()

◆ CreateColorTextureMap() [1/3]

◆ CreateColorTextureMap() [2/3]

◆ CreateColorTextureMap() [3/3]

◆ CreateFromOld()

◆ CreateNewHistoImage()

◆ CreateNewPointCloud()

◆ FindPointCloud()

◆ ReadMetaData()

◆ SpawnPoints() [1/3]

◆ SpawnPoints() [2/3]

◆ SpawnPoints() [3/3]