CellexalVR.AnalysisLogic.HeatmapGenerator Class Reference

A generator for heatmaps. Creates the colors that are later used when generating heatmaps More...

Inheritance diagram for CellexalVR.AnalysisLogic.HeatmapGenerator:

Public Member Functions
void	InitColors ()
	Initializes expressionColors with the colors in the config file. More...
void	CreateHeatmap ()
void	CreateHeatmap (string name="")
	Creates a new heatmap using the last confirmed selection. More...
void	DeleteHeatmap (string heatmapName)
	Removes one heatmap. More...
Heatmap	FindHeatmap (string heatmapName)
	Finds a heatmap. More...
void	HighLightGene (string geneName)
	Highlights gene in genelist in all the heatmaps if it is there. More...
void	BuildTexture (List< Graph.GraphPoint > selection, string filepath, Heatmap heatmap)
	Builds the heatmap texture. More...
void	BuildTexture (Heatmap heatmap)
	Builds a heatmap texture based on already known groupwidths and attribute widths. More...
void	BuildTexture (Cell[] newCells, string[] newGenes, List< Tuple< int, float, int >> newGroupWidths, Heatmap heatmap)
	Builds this heatmaps texture using the supplied cells and genes. More...
IEnumerator	BuildTextureCoroutine (Heatmap heatmap)
	Coroutine that starts a thread and generates the heatmap. More...
void	CreateHeatmapPNG (Heatmap heatmap, ArrayList result, Dictionary< string, int > genePositions, Dictionary< string, int > cellsPosition, Dictionary< string, string > geneIds, string heatmapFilePath)
	Helper method that is run as a thread in BuildTextureCoroutine(List<Tuple<int, float, int>>, List<Tuple<int, float, int>>, Heatmap). More...
void	SavePNGtoDisk (Heatmap heatmap, string heatmapFilePath)
	If the heatmap is to be saved for logging purposes (when the user presses save heatmap) the background color should be white and text colour black for easier reading on a computer screen. So only the genelist and widths are redrawn. More...
void	AddHeatmapToList (Heatmap heatmap)

Public Attributes
ReferenceManager	referenceManager
GameObject	heatmapPrefab
Texture2D	heatmapTexture
int	selectionNr
int	heatmapsCreated = 0
SolidBrush[]	expressionColors
SelectionManager	selectionManager

Properties
bool	GeneratingHeatmaps [get]
UnityEngine.Color	HighlightMarkerColor [get]
UnityEngine.Color	ConfirmMarkerColor [get]

Detailed Description

A generator for heatmaps. Creates the colors that are later used when generating heatmaps

Member Function Documentation

BuildTexture() [1/3]

void CellexalVR.AnalysisLogic.HeatmapGenerator.BuildTexture	(	Cell[]	newCells,
		string[]	newGenes,
		List< Tuple< int, float, int >>	newGroupWidths,
		Heatmap	heatmap
	)

Builds this heatmaps texture using the supplied cells and genes.

Parameters

newCells	The cells that the heatmap should contain.
newGenes	The genes that the heatmap should contain.
newGroupWidths	The grouping information.

BuildTexture() [2/3]

void CellexalVR.AnalysisLogic.HeatmapGenerator.BuildTexture

(

Heatmap

heatmap

)

Builds a heatmap texture based on already known groupwidths and attribute widths.

Parameters

heatmap

The heatmap to attach the texture to.

BuildTexture() [3/3]

void CellexalVR.AnalysisLogic.HeatmapGenerator.BuildTexture	(	List< Graph.GraphPoint >	selection,
		string	filepath,
		Heatmap	heatmap
	)

Builds the heatmap texture.

Parameters

selection	An array containing the GraphPoint that are in the heatmap
filepath	A path to the file containing the gene names

BuildTextureCoroutine()

IEnumerator CellexalVR.AnalysisLogic.HeatmapGenerator.BuildTextureCoroutine

(

Heatmap

heatmap

)

Coroutine that starts a thread and generates the heatmap.

Parameters

heatmap

CreateHeatmap()

void CellexalVR.AnalysisLogic.HeatmapGenerator.CreateHeatmap

(

string

name = ""

)

Creates a new heatmap using the last confirmed selection.

Parameters

name	If created via multiplayer. Name it the same as on other client.

CreateHeatmapPNG()

void CellexalVR.AnalysisLogic.HeatmapGenerator.CreateHeatmapPNG	(	Heatmap	heatmap,
		ArrayList	result,
		Dictionary< string, int >	genePositions,
		Dictionary< string, int >	cellsPosition,
		Dictionary< string, string >	geneIds,
		string	heatmapFilePath
	)

Helper method that is run as a thread in BuildTextureCoroutine(List<Tuple<int, float, int>>, List<Tuple<int, float, int>>, Heatmap).

DeleteHeatmap()

void CellexalVR.AnalysisLogic.HeatmapGenerator.DeleteHeatmap

(

string

heatmapName

)

Removes one heatmap.

Parameters

heatmapName

The heatmap's name.

FindHeatmap()

Heatmap CellexalVR.AnalysisLogic.HeatmapGenerator.FindHeatmap

(

string

heatmapName

)

Finds a heatmap.

Parameters

heatmapName

The heatmap's name.

Returns

The heatmap, or null if no heatmap by that name exists.

HighLightGene()

void CellexalVR.AnalysisLogic.HeatmapGenerator.HighLightGene

(

string

geneName

)

Highlights gene in genelist in all the heatmaps if it is there.

Parameters

geneName

Name of the gene to be highlighted.

InitColors()

void CellexalVR.AnalysisLogic.HeatmapGenerator.InitColors

(

)

Initializes expressionColors with the colors in the config file.

SavePNGtoDisk()

void CellexalVR.AnalysisLogic.HeatmapGenerator.SavePNGtoDisk	(	Heatmap	heatmap,
		string	heatmapFilePath
	)

If the heatmap is to be saved for logging purposes (when the user presses save heatmap) the background color should be white and text colour black for easier reading on a computer screen. So only the genelist and widths are redrawn.

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

• Assets/Scripts/AnalysisLogic/HeatmapGenerator.cs