mgx::RootCellProcessing Class Reference

#include <RootCellProcessing.hpp>

Public Member Functions
void	createHeatMapNoCellAtlas (AttrMap< int, double > &dataX, AttrMap< int, double > &dataY)
void	associateNearestCluster (heatMapDataStructure &body)
	RootCellProcessing ()
void	setDataPointers (CellAtlasAttr *cellAtlasAttr, CellAtlasConfigAttr *cellAtlasConfigAttr)
std::map< int, double >	getMapFromAttributes (QString mapName)
void	initHeatMapDataStructure (heatMapDataStructure &body, double sig, int &chosenX, int &chosenY)
void	findHeatStatistics (heatMapDataStructure &body)
cellMorphLandscape	generateCellMorphologyLandscape (heatMapDataStructure &body)
std::map< int, Point2d >	findMaxima (cellMorphLandscape &landsc)
std::map< int, double >	labelCells (std::map< int, double > &labelToMax, std::map< int, double > &maxToRef, heatMapDataStructure &body)
void	correctDirections ()
void	assignRootRegions ()
std::map< int, double >	relateCellstoMaxima (heatMapDataStructure &body, cellMorphLandscape &landsc, std::map< int, double > &x, std::map< int, double > &y, std::map< int, Point2d > maxima)
double	minDisToMax (std::map< int, Point2d > &maxima, std::map< int, double > &usedMax, int currentIdx)
void	findAutomaticCluster (heatMapDataStructure &body, int nrOfClusters)
void	setAutoCluster (int nrCluster, bool ismainBody)
void	delIdx (heatMapDataStructure &body, int idx)
std::map< int, double >	clusterCells (heatMapDataStructure &body)
void	setParameter (bool outputType, int label1, int label2)
double	findHighMax (heatMapDataStructure &body)
void	setHeatmap (heatMapDataStructure &body, QString optionGUI, int &chosenOption, bool x)
void	geometryBasedLabelling ()
void	resetHeat (heatMapDataStructure &body)
void	preselectCells (heatMapDataStructure &body)
void	assignColumella (int labelRootCap, int labelCol, double rat_val, double sca_val)
void	assignCortCellsGetMinMax (int labelCort, double &minS, double &maxS)
void	assignCortCells (int labelCort, std::vector< double > &sSmooth, std::map< int, Point3d > &bMapS, int length)

Public Attributes
CellAtlasAttr *	data
CellAtlasConfigAttr *	config
bool	pointersSet
int	numCells
std::map< int, int >	labelMap
std::map< int, int >	parentsMap
bool	outlierDetection
rootDataStructure	rootData
heatMapDataStructure	mainBody
heatMapDataStructure	radicle
heatMapDataStructure	columella
primDataStructure	prim1
primDataStructure	prim2

Detailed Description

Definition at line 408 of file RootCellProcessing.hpp.

Constructor & Destructor Documentation

RootCellProcessing()

mgx::RootCellProcessing::RootCellProcessing ( )

inline

Definition at line 426 of file RootCellProcessing.hpp.

Member Function Documentation

assignColumella()

void mgx::RootCellProcessing::assignColumella	(	int	labelRootCap,
		int	labelCol,
		double	rat_val,
		double	sca_val
	)

assignCortCells()

void mgx::RootCellProcessing::assignCortCells	(	int	labelCort,
		std::vector< double > &	sSmooth,
		std::map< int, Point3d > &	bMapS,
		int	length
	)

assignCortCellsGetMinMax()

void mgx::RootCellProcessing::assignCortCellsGetMinMax	(	int	labelCort,
		double &	minS,
		double &	maxS
	)

assignRootRegions()

void mgx::RootCellProcessing::assignRootRegions

(

)

associateNearestCluster()

void mgx::RootCellProcessing::associateNearestCluster

(

heatMapDataStructure &

body

)

clusterCells()

std::map<int,double> mgx::RootCellProcessing::clusterCells

(

heatMapDataStructure &

body

)

correctDirections()

void mgx::RootCellProcessing::correctDirections

(

)

createHeatMapNoCellAtlas()

void mgx::RootCellProcessing::createHeatMapNoCellAtlas	(	AttrMap< int, double > &	dataX,
		AttrMap< int, double > &	dataY
	)

delIdx()

void mgx::RootCellProcessing::delIdx	(	heatMapDataStructure &	body,
		int	idx
	)

findAutomaticCluster()

void mgx::RootCellProcessing::findAutomaticCluster	(	heatMapDataStructure &	body,
		int	nrOfClusters
	)

findHeatStatistics()

void mgx::RootCellProcessing::findHeatStatistics

(

heatMapDataStructure &

body

)

findHighMax()

double mgx::RootCellProcessing::findHighMax

(

heatMapDataStructure &

body

)

findMaxima()

std::map<int,Point2d> mgx::RootCellProcessing::findMaxima

(

cellMorphLandscape &

landsc

)

generateCellMorphologyLandscape()

cellMorphLandscape mgx::RootCellProcessing::generateCellMorphologyLandscape

(

heatMapDataStructure &

body

)

geometryBasedLabelling()

void mgx::RootCellProcessing::geometryBasedLabelling

(

)

getMapFromAttributes()

std::map<int, double> mgx::RootCellProcessing::getMapFromAttributes

(

QString

mapName

)

initHeatMapDataStructure()

void mgx::RootCellProcessing::initHeatMapDataStructure	(	heatMapDataStructure &	body,
		double	sig,
		int &	chosenX,
		int &	chosenY
	)

labelCells()

std::map<int,double> mgx::RootCellProcessing::labelCells	(	std::map< int, double > &	labelToMax,
		std::map< int, double > &	maxToRef,
		heatMapDataStructure &	body
	)

minDisToMax()

double mgx::RootCellProcessing::minDisToMax	(	std::map< int, Point2d > &	maxima,
		std::map< int, double > &	usedMax,
		int	currentIdx
	)

preselectCells()

void mgx::RootCellProcessing::preselectCells

(

heatMapDataStructure &

body

)

relateCellstoMaxima()

std::map<int,double> mgx::RootCellProcessing::relateCellstoMaxima	(	heatMapDataStructure &	body,
		cellMorphLandscape &	landsc,
		std::map< int, double > &	x,
		std::map< int, double > &	y,
		std::map< int, Point2d >	maxima
	)

resetHeat()

void mgx::RootCellProcessing::resetHeat

(

heatMapDataStructure &

body

)

setAutoCluster()

void mgx::RootCellProcessing::setAutoCluster	(	int	nrCluster,
		bool	ismainBody
	)

setDataPointers()

void mgx::RootCellProcessing::setDataPointers ( CellAtlasAttr *  cellAtlasAttr, CellAtlasConfigAttr *  cellAtlasConfigAttr  )

inline

Definition at line 428 of file RootCellProcessing.hpp.

setHeatmap()

void mgx::RootCellProcessing::setHeatmap	(	heatMapDataStructure &	body,
		QString	optionGUI,
		int &	chosenOption,
		bool	x
	)

setParameter()

void mgx::RootCellProcessing::setParameter	(	bool	outputType,
		int	label1,
		int	label2
	)

Member Data Documentation

columella

heatMapDataStructure mgx::RootCellProcessing::columella

Definition at line 528 of file RootCellProcessing.hpp.

config

CellAtlasConfigAttr* mgx::RootCellProcessing::config

Definition at line 414 of file RootCellProcessing.hpp.

data

CellAtlasAttr* mgx::RootCellProcessing::data

Definition at line 413 of file RootCellProcessing.hpp.

labelMap

std::map<int,int> mgx::RootCellProcessing::labelMap

Definition at line 418 of file RootCellProcessing.hpp.

mainBody

heatMapDataStructure mgx::RootCellProcessing::mainBody

Definition at line 526 of file RootCellProcessing.hpp.

numCells

int mgx::RootCellProcessing::numCells

Definition at line 417 of file RootCellProcessing.hpp.

outlierDetection

bool mgx::RootCellProcessing::outlierDetection

Definition at line 420 of file RootCellProcessing.hpp.

parentsMap

std::map<int,int> mgx::RootCellProcessing::parentsMap

Definition at line 418 of file RootCellProcessing.hpp.

pointersSet

bool mgx::RootCellProcessing::pointersSet

Definition at line 415 of file RootCellProcessing.hpp.

prim1

primDataStructure mgx::RootCellProcessing::prim1

Definition at line 531 of file RootCellProcessing.hpp.

prim2

primDataStructure mgx::RootCellProcessing::prim2

Definition at line 531 of file RootCellProcessing.hpp.

radicle

heatMapDataStructure mgx::RootCellProcessing::radicle

Definition at line 527 of file RootCellProcessing.hpp.

rootData

rootDataStructure mgx::RootCellProcessing::rootData

Definition at line 524 of file RootCellProcessing.hpp.

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

• AddOns/CellAtlas/RootCellProcessing.hpp