D_Bio_NucleusBlob Class Reference

#include <d_bio_nucleusblob.h>

Public Member Functions
	D_Bio_NucleusBlob ()
	D_Bio_NucleusBlob (QString QS_PathLoad)
	D_Bio_NucleusBlob (vector< Point > contour_points, Point Offset=Point(0, 0))
	D_Bio_NucleusBlob (vector< Point > contour_points, size_t time, Point Offset=Point(0, 0))
	D_Bio_NucleusBlob (vector< Point > contour_points, vector< vector< double >> SignalStats_StatChannel, Point Offset=Point(0, 0))
	D_Bio_NucleusBlob (vector< Point > contour_points, vector< vector< double >> SignalStats_StatChannel, size_t time, Point Offset=Point(0, 0))
void	set_FociChannels (size_t channels)
void	set_Foci (size_t channel, vector< D_Bio_Focus > v_foci)
void	set_Foci (vector< vector< D_Bio_Focus >> vv_foci)
void	add_Focus (size_t channel, D_Bio_Focus focus)
void	clear_Foci ()
double	attribute (size_t i_attrib, size_t ch_val, double scale_px2um)
size_t	get_FociChannels ()
vector< vector< D_Bio_Focus > >	get_Foci ()
size_t	get_FociCount (size_t channel)
vector< D_Bio_Focus >	get_Foci (size_t channel)
D_Bio_Focus	get_Focus (size_t channel, size_t index)
D_Bio_Focus *	get_pFocus (size_t channel, size_t index)
int	get_Contours_append (vector< vector< Point >> *pvScaledContours, double scale)
int	get_Contours_append (vector< D_Contour > *pvContours)
int	get_FociCount_append (QStringList *pQSL_FociCounts)
int	get_ShapeInfo_append (QStringList *pQSL_ShapeInfo)
int	get_ChannelStat_append (QStringList *pQSL_Stat, size_t stat_index_bio_enum)
void	block_save_StitchingBorder_BottomRight (size_t x, size_t y)
int	save_simple (QString path_of_dir_to_save_in, bool save_foci)
bool	load_simple (QString nucleus_file, bool load_foci_from_file)
bool	set_path_relative (QString path_rel)
bool	set_path_absolute (QString path_abs, QDir master_dir)
bool	has_path_relative ()
QString	get_path_relative ()
QString	get_path_absolute (QDir master_dir)
QString	get_path_absolute_loaded_from ()
bool	is_path_relative (QString path_rel)
Rect	bounding_box ()
void	set_value_channels (size_t channels)
vector< Point >	contour ()
vector< Point2f >	contour_f (double scale, Point P_offset_scaled)
vector< Point >	contour (double scale, Point P_offset_scaled)
void	forget_contour_and_calc_feats ()
double	dist2contour (Point2f point)
double	dist2centroid (Point2f point)
bool	contains_point (Point P, double margin=0)
Point2f	centroid ()
Point2f	centroid (double scale, Point P_offset_scaled)
double	area ()
double	compactness ()
double	convexity ()
size_t	time_index ()
size_t	time_irradiation ()
void	set_time_index (size_t t)
void	set_time_irradiation (double t)
size_t	channels ()
double	signal_stat (size_t channel, size_t stat_local_id)
double	signal_median (size_t channel)
double	signal_dev2med (size_t channel)
bool	is_duplicate (vector< D_Bio_NucleusBlob > v_other_nucs, double rel_overlap_for_duplicate=0.5)
QString	info ()
void	matching_InitMatching ()
double	matching_Score (D_Bio_NucleusBlob *nuc_calc_score, vector< size_t > *pvScoreRelevantCriteria, vector< double > *pvScoreWeights, vector< double > *pvScoreMax, double max_area_increase_to_rel, double max_area_decrease_to_rel, double max_shift)
double	matching_Score_Parent ()
double	matching_Score_Child1 ()
double	matching_Score_Child2 ()
void	matching_SetAsChild (D_Bio_NucleusBlob *nuc_set_child, double score)
void	matching_SetAsParent (D_Bio_NucleusBlob *nuc_set_parent, double score)
bool	matching_RemoveChild (D_Bio_NucleusBlob *nuc_remove_child)
bool	matching_RemoveParent (D_Bio_NucleusBlob *nuc_remove_parent)
void	matching_set_excluded (bool exclude)
bool	matching_excluded_this ()
bool	matching_excluded_life ()
int	matching_excluded_life_time ()
D_Bio_NucleusBlob *	matching_excluded_pNucMarked ()
D_Bio_NucleusBlob *	matching_Child1 ()
D_Bio_NucleusBlob *	matching_Child2 ()
D_Bio_NucleusBlob *	matching_ChildFavorite ()
D_Bio_NucleusBlob *	matching_Parent ()
D_Bio_NucleusBlob *	matching_Source ()
D_Bio_NucleusBlob *	matching_Destinantion ()
bool	matching_foundChild1 ()
bool	matching_foundChild2 ()
bool	matching_foundParent ()
bool	matching_foundNoParent ()
bool	matching_foundNoChild ()
bool	matching_foundAtMostOneChild ()
bool	matching_isNoMitosis ()
bool	matching_foundAtLeastOneChild ()
bool	matching_foundExactlyOneChild ()
bool	matching_isMitosis ()
bool	matching_isLinear ()
bool	matching_parent_isMitosis ()
bool	matching_isConnectedTo (D_Bio_NucleusBlob *nuc)
size_t	matching_Age ()
size_t	matching_AgeToGo ()
size_t	matching_AgeFull ()
int	matching_Type (Rect FrameNotNearBorder, double t_begin, double t_end)
QColor	matching_TypeColor (Rect FrameNotNearBorder, double t_begin, double t_end)
size_t	matching_TimeIndexOfOldestAncestor ()
bool	matching_HasAncestorInRange (size_t t_oldest, double y_min_px, double y_max_px, double x_min_px, double x_max_px)
void	matching_setTriedToMatchAtLeastOnce (bool tried)

Static Public Member Functions
static bool	attribute_is_value_channel_dependent (size_t i_attrib)
static bool	attribute_is_focus_channel_dependent (size_t i_attrib)

Constructor & Destructor Documentation

D_Bio_NucleusBlob() [1/6]

D_Bio_NucleusBlob::D_Bio_NucleusBlob

(

)

D_Bio_NucleusBlob() [2/6]

D_Bio_NucleusBlob::D_Bio_NucleusBlob

(

QString

QS_PathLoad

)

D_Bio_NucleusBlob() [3/6]

D_Bio_NucleusBlob::D_Bio_NucleusBlob	(	vector< Point >	contour_points,
		Point	Offset = Point(0, 0)
	)

D_Bio_NucleusBlob() [4/6]

D_Bio_NucleusBlob::D_Bio_NucleusBlob	(	vector< Point >	contour_points,
		size_t	time,
		Point	Offset = Point(0, 0)
	)

D_Bio_NucleusBlob() [5/6]

D_Bio_NucleusBlob::D_Bio_NucleusBlob	(	vector< Point >	contour_points,
		vector< vector< double >>	SignalStats_StatChannel,
		Point	Offset = Point(0, 0)
	)

D_Bio_NucleusBlob() [6/6]

D_Bio_NucleusBlob::D_Bio_NucleusBlob	(	vector< Point >	contour_points,
		vector< vector< double >>	SignalStats_StatChannel,
		size_t	time,
		Point	Offset = Point(0, 0)
	)

Member Function Documentation

add_Focus()

void D_Bio_NucleusBlob::add_Focus	(	size_t	channel,
		D_Bio_Focus	focus
	)

area()

double D_Bio_NucleusBlob::area ( )

inline

attribute()

double D_Bio_NucleusBlob::attribute	(	size_t	i_attrib,
		size_t	ch_val,
		double	scale_px2um
	)

attribute_is_focus_channel_dependent()

bool D_Bio_NucleusBlob::attribute_is_focus_channel_dependent ( size_t  i_attrib )

static

attribute_is_value_channel_dependent()

bool D_Bio_NucleusBlob::attribute_is_value_channel_dependent ( size_t  i_attrib )

static

block_save_StitchingBorder_BottomRight()

void D_Bio_NucleusBlob::block_save_StitchingBorder_BottomRight ( size_t  x, size_t  y  )

inline

bounding_box()

Rect D_Bio_NucleusBlob::bounding_box

(

)

centroid() [1/2]

Point2f D_Bio_NucleusBlob::centroid ( )

inline

centroid() [2/2]

Point2f D_Bio_NucleusBlob::centroid	(	double	scale,
		Point	P_offset_scaled
	)

channels()

size_t D_Bio_NucleusBlob::channels ( )

inline

clear_Foci()

void D_Bio_NucleusBlob::clear_Foci ( )

inline

compactness()

double D_Bio_NucleusBlob::compactness ( )

inline

contains_point()

bool D_Bio_NucleusBlob::contains_point ( Point  P, double  margin = 0  )

inline

contour() [1/2]

vector<Point> D_Bio_NucleusBlob::contour ( )

inline

contour() [2/2]

vector< Point > D_Bio_NucleusBlob::contour	(	double	scale,
		Point	P_offset_scaled
	)

contour_f()

vector< Point2f > D_Bio_NucleusBlob::contour_f	(	double	scale,
		Point	P_offset_scaled
	)

convexity()

double D_Bio_NucleusBlob::convexity ( )

inline

dist2centroid()

double D_Bio_NucleusBlob::dist2centroid ( Point2f  point )

inline

dist2contour()

double D_Bio_NucleusBlob::dist2contour ( Point2f  point )

inline

forget_contour_and_calc_feats()

void D_Bio_NucleusBlob::forget_contour_and_calc_feats ( )

inline

get_ChannelStat_append()

int D_Bio_NucleusBlob::get_ChannelStat_append	(	QStringList *	pQSL_Stat,
		size_t	stat_index_bio_enum
	)

get_Contours_append() [1/2]

int D_Bio_NucleusBlob::get_Contours_append

(

vector< D_Contour > *

pvContours

)

get_Contours_append() [2/2]

int D_Bio_NucleusBlob::get_Contours_append	(	vector< vector< Point >> *	pvScaledContours,
		double	scale
	)

get_Foci() [1/2]

vector<vector<D_Bio_Focus> > D_Bio_NucleusBlob::get_Foci ( )

inline

get_Foci() [2/2]

vector<D_Bio_Focus> D_Bio_NucleusBlob::get_Foci ( size_t  channel )

inline

get_FociChannels()

size_t D_Bio_NucleusBlob::get_FociChannels ( )

inline

get_FociCount()

size_t D_Bio_NucleusBlob::get_FociCount ( size_t  channel )

inline

get_FociCount_append()

int D_Bio_NucleusBlob::get_FociCount_append

(

QStringList *

pQSL_FociCounts

)

get_Focus()

D_Bio_Focus D_Bio_NucleusBlob::get_Focus ( size_t  channel, size_t  index  )

inline

get_path_absolute()

QString D_Bio_NucleusBlob::get_path_absolute ( QDir  master_dir )

inline

get_path_absolute_loaded_from()

QString D_Bio_NucleusBlob::get_path_absolute_loaded_from ( )

inline

get_path_relative()

QString D_Bio_NucleusBlob::get_path_relative ( )

inline

get_pFocus()

D_Bio_Focus* D_Bio_NucleusBlob::get_pFocus ( size_t  channel, size_t  index  )

inline

get_ShapeInfo_append()

int D_Bio_NucleusBlob::get_ShapeInfo_append

(

QStringList *

pQSL_ShapeInfo

)

has_path_relative()

bool D_Bio_NucleusBlob::has_path_relative ( )

inline

info()

QString D_Bio_NucleusBlob::info

(

)

is_duplicate()

bool D_Bio_NucleusBlob::is_duplicate	(	vector< D_Bio_NucleusBlob >	v_other_nucs,
		double	rel_overlap_for_duplicate = 0.5
	)

is_path_relative()

bool D_Bio_NucleusBlob::is_path_relative ( QString  path_rel )

inline

load_simple()

bool D_Bio_NucleusBlob::load_simple	(	QString	nucleus_file,
		bool	load_foci_from_file
	)

matching_Age()

size_t D_Bio_NucleusBlob::matching_Age ( )

inline

matching_AgeFull()

size_t D_Bio_NucleusBlob::matching_AgeFull ( )

inline

matching_AgeToGo()

size_t D_Bio_NucleusBlob::matching_AgeToGo ( )

inline

matching_Child1()

D_Bio_NucleusBlob* D_Bio_NucleusBlob::matching_Child1 ( )

inline

matching_Child2()

D_Bio_NucleusBlob* D_Bio_NucleusBlob::matching_Child2 ( )

inline

matching_ChildFavorite()

D_Bio_NucleusBlob* D_Bio_NucleusBlob::matching_ChildFavorite ( )

inline

matching_Destinantion()

D_Bio_NucleusBlob* D_Bio_NucleusBlob::matching_Destinantion ( )

inline

matching_excluded_life()

bool D_Bio_NucleusBlob::matching_excluded_life

(

)

matching_excluded_life_time()

int D_Bio_NucleusBlob::matching_excluded_life_time

(

)

matching_excluded_pNucMarked()

D_Bio_NucleusBlob * D_Bio_NucleusBlob::matching_excluded_pNucMarked

(

)

matching_excluded_this()

bool D_Bio_NucleusBlob::matching_excluded_this ( )

inline

matching_foundAtLeastOneChild()

bool D_Bio_NucleusBlob::matching_foundAtLeastOneChild ( )

inline

matching_foundAtMostOneChild()

bool D_Bio_NucleusBlob::matching_foundAtMostOneChild ( )

inline

matching_foundChild1()

bool D_Bio_NucleusBlob::matching_foundChild1 ( )

inline

matching_foundChild2()

bool D_Bio_NucleusBlob::matching_foundChild2 ( )

inline

matching_foundExactlyOneChild()

bool D_Bio_NucleusBlob::matching_foundExactlyOneChild ( )

inline

matching_foundNoChild()

bool D_Bio_NucleusBlob::matching_foundNoChild ( )

inline

matching_foundNoParent()

bool D_Bio_NucleusBlob::matching_foundNoParent ( )

inline

matching_foundParent()

bool D_Bio_NucleusBlob::matching_foundParent ( )

inline

matching_HasAncestorInRange()

bool D_Bio_NucleusBlob::matching_HasAncestorInRange	(	size_t	t_oldest,
		double	y_min_px,
		double	y_max_px,
		double	x_min_px,
		double	x_max_px
	)

matching_InitMatching()

void D_Bio_NucleusBlob::matching_InitMatching

(

)

matching_isConnectedTo()

bool D_Bio_NucleusBlob::matching_isConnectedTo ( D_Bio_NucleusBlob *  nuc )

inline

matching_isLinear()

bool D_Bio_NucleusBlob::matching_isLinear ( )

inline

matching_isMitosis()

bool D_Bio_NucleusBlob::matching_isMitosis ( )

inline

matching_isNoMitosis()

bool D_Bio_NucleusBlob::matching_isNoMitosis ( )

inline

matching_Parent()

D_Bio_NucleusBlob* D_Bio_NucleusBlob::matching_Parent ( )

inline

matching_parent_isMitosis()

bool D_Bio_NucleusBlob::matching_parent_isMitosis ( )

inline

matching_RemoveChild()

bool D_Bio_NucleusBlob::matching_RemoveChild

(

D_Bio_NucleusBlob *

nuc_remove_child

)

matching_RemoveParent()

bool D_Bio_NucleusBlob::matching_RemoveParent

(

D_Bio_NucleusBlob *

nuc_remove_parent

)

matching_Score()

double D_Bio_NucleusBlob::matching_Score	(	D_Bio_NucleusBlob *	nuc_calc_score,
		vector< size_t > *	pvScoreRelevantCriteria,
		vector< double > *	pvScoreWeights,
		vector< double > *	pvScoreMax,
		double	max_area_increase_to_rel,
		double	max_area_decrease_to_rel,
		double	max_shift
	)

matching_Score_Child1()

double D_Bio_NucleusBlob::matching_Score_Child1 ( )

inline

matching_Score_Child2()

double D_Bio_NucleusBlob::matching_Score_Child2 ( )

inline

matching_Score_Parent()

double D_Bio_NucleusBlob::matching_Score_Parent ( )

inline

matching_set_excluded()

void D_Bio_NucleusBlob::matching_set_excluded ( bool  exclude )

inline

matching_SetAsChild()

void D_Bio_NucleusBlob::matching_SetAsChild	(	D_Bio_NucleusBlob *	nuc_set_child,
		double	score
	)

matching_SetAsParent()

void D_Bio_NucleusBlob::matching_SetAsParent	(	D_Bio_NucleusBlob *	nuc_set_parent,
		double	score
	)

matching_setTriedToMatchAtLeastOnce()

void D_Bio_NucleusBlob::matching_setTriedToMatchAtLeastOnce ( bool  tried )

inline

matching_Source()

D_Bio_NucleusBlob* D_Bio_NucleusBlob::matching_Source ( )

inline

matching_TimeIndexOfOldestAncestor()

size_t D_Bio_NucleusBlob::matching_TimeIndexOfOldestAncestor

(

)

matching_Type()

int D_Bio_NucleusBlob::matching_Type	(	Rect	FrameNotNearBorder,
		double	t_begin,
		double	t_end
	)

matching_TypeColor()

QColor D_Bio_NucleusBlob::matching_TypeColor	(	Rect	FrameNotNearBorder,
		double	t_begin,
		double	t_end
	)

save_simple()

int D_Bio_NucleusBlob::save_simple	(	QString	path_of_dir_to_save_in,
		bool	save_foci
	)

set_Foci() [1/2]

void D_Bio_NucleusBlob::set_Foci	(	size_t	channel,
		vector< D_Bio_Focus >	v_foci
	)

set_Foci() [2/2]

void D_Bio_NucleusBlob::set_Foci

(

vector< vector< D_Bio_Focus >>

vv_foci

)

set_FociChannels()

void D_Bio_NucleusBlob::set_FociChannels ( size_t  channels )

inline

set_path_absolute()

bool D_Bio_NucleusBlob::set_path_absolute	(	QString	path_abs,
		QDir	master_dir
	)

set_path_relative()

bool D_Bio_NucleusBlob::set_path_relative

(

QString

path_rel

)

set_time_index()

void D_Bio_NucleusBlob::set_time_index ( size_t  t )

inline

set_time_irradiation()

void D_Bio_NucleusBlob::set_time_irradiation ( double  t )

inline

set_value_channels()

void D_Bio_NucleusBlob::set_value_channels ( size_t  channels )

inline

signal_dev2med()

double D_Bio_NucleusBlob::signal_dev2med ( size_t  channel )

inline

signal_median()

double D_Bio_NucleusBlob::signal_median ( size_t  channel )

inline

signal_stat()

double D_Bio_NucleusBlob::signal_stat ( size_t  channel, size_t  stat_local_id  )

inline

time_index()

size_t D_Bio_NucleusBlob::time_index ( )

inline

time_irradiation()

size_t D_Bio_NucleusBlob::time_irradiation ( )

inline

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

• Code/d_bio_nucleusblob.h
• Code/d_bio_nucleusblob.cpp