Morphology

_CleanBinary, _CleanBinaryGa3, _CloseBinary, _CloseBinaryGa3, _CloseHolesBinaryGa3, _ConnectEndings, _Contour, _ContourGa3, _CutBranches, _CutBranchesGa3, _DetectBranching, _DetectBranchingGa3, _DetectEnding, _DetectEndingGa3, _DilateBinary, _DilateBinaryGa3, _ErodeBinary, _ErodeBinaryGa3, _FillHoles, _FillHolesGa3, _OpenBinary, _OpenBinaryGa3, _VanishObjects, CleanBinaryGa3, CloseBinary, CloseBinaryGa3, CloseBinaryND, CloseHolesBinaryGa3, ConnectEndings, Contour, ContourGa3, ContourND, CutBranches, CutBranchesGa3, DetectBranching, DetectBranchingGa3, DetectBranchingND, DetectEnding, DetectEndingGa3, DetectEndingND, DilateBinary, DilateBinaryGa3, DilateBinaryND, ErodeBinary, ErodeBinaryGa3, ErodeBinaryND, FillHoles, FillHolesGa3, FillHolesND, OpenBinary, OpenBinaryGa3, OpenBinaryND, VanishObjects

CleanBinaryGa3

Description

 CleanBinaryGa3(
   double  dSize,
   int  NDDimension
);

This General Analysis 3 function removes small objects from the binary image.

Parameters

double dSize

Radius value.

int NDDimension

Frame selection of the ND document.

0	Current frame
1	Time dimension
2	Multipoint dimension
4	Z dimension
15	All frames (the whole ND document).
16	Selection - the frames/dimensions selected by mouse within the ND control bar will be affected.

Note

Value combination is also possible (e.g.: M+T=3, Z+T=5, M+Z=6).

CloseBinary

Interactive command to this function: Binary > Close

Description

 CloseBinary(
   int  Count,
   int  MatrixType
);

This function transforms current binary image by morphological closing. An interactive equivalent is the _CloseBinary function.

Parameters

int Count

Number of iterations.

int MatrixType

Type of the structuring element used for the processing with the center in the enhanced pixel.

2
3
4
5

Note

Morphological closing is a dilation followed by an erosion of the same amount. This transformation is used for a binary image filtration. Small holes are filled and closely neighboring objects are connected.

CloseBinaryGa3

Description

 CloseBinaryGa3(
   int  iCount,
   int  iMatrix,
   int  NDDimension
);

This General Analysis 3 function transforms the current binary image by morphological closing. iCount subsequently applies elementary dilations followed by the same count of elementary erosions.

Parameters

int iCount

Number of iterations.

int iMatrix

Type of the structuring element used for the processing with the center in the enhanced pixel.

2
3
4
5

int NDDimension

Frame selection of the ND document.

0	Current frame
1	Time dimension
2	Multipoint dimension
4	Z dimension
15	All frames (the whole ND document).
16	Selection - the frames/dimensions selected by mouse within the ND control bar will be affected.

Note

Value combination is also possible (e.g.: M+T=3, Z+T=5, M+Z=6).

CloseBinaryND

Description

 CloseBinaryND(
   int  Count,
   int  MatrixType,
   int  NDTLoop,
   int  NDMPLoop,
   int  NDZLoop
);

This function transforms binary layers of the current ND document by morphological closing.

Parameters

int Count

Number of iterations.

int MatrixType

Type of the structuring element used for the processing with the center in the enhanced pixel.

2
3
4
5

int NDTLoop

0	apply to the current loop only
1	apply to the whole Time dimension

int NDMPLoop

Apply to Multi Point dimension.

0	apply to the current loop only
1	apply to the whole Multi Point dimension

int NDZLoop

Apply to Z dimension

0	apply to the current loop only
1	apply to the whole Z Series dimension

Note

CloseHolesBinaryGa3

Description

 CloseHolesBinaryGa3(
   int  iCount,
   int  iMatrix,
   int  NDDimension
);

This General Analysis 3 function removes small holes from the current image on a Z-stack of binary layers.

Parameters

int iCount

Number of iterations.

int iMatrix

Type of the structuring element used for the processing with the center in the enhanced pixel.

2
3
4
5

int NDDimension

Frame selection of the ND document.

0	Current frame
1	Time dimension
2	Multipoint dimension
4	Z dimension
15	All frames (the whole ND document).
16	Selection - the frames/dimensions selected by mouse within the ND control bar will be affected.

Note

Value combination is also possible (e.g.: M+T=3, Z+T=5, M+Z=6).

ConnectEndings

Interactive command to this function: Binary > Skeleton Morphology > Connect Free Endings on Skeleton

Description

 ConnectEndings(
   int  ConnectEndingsEnergy,
   int  UseGaborInstead,
   int  NDDimension
);

This function connects branch-endings on a skeletonized image.

Parameters

int ConnectEndingsEnergy

Sensitivity of the function. <1,200> A relative value which determines how many connections will be created.

int UseGaborInstead

0	Leave the image as is and evaluate edge strength.
1	Apply Gabor edge detection to the image before evaluating the edge strength.

int NDDimension

Frame selection of the ND document.

0	Current frame
1	Time dimension
2	Multipoint dimension
4	Z dimension
15	All frames (the whole ND document).
16	Selection - the frames/dimensions selected by mouse within the ND control bar will be affected.

Note

Value combination is also possible (e.g.: M+T=3, Z+T=5, M+Z=6).

Contour

Interactive command to this function: Binary > Detect > Contour

Description

 Contour();

This function transforms the binary image to its contour.

Note

The binary image is transformed to its contour. It is the inner contour e.g. the binary image after transformation is a subset of the original image.

ContourGa3

Description

 ContourGa3(
   int  NDDimension
);

Transforms binary image to its 1 pixel wide contour.

Parameters

int NDDimension

Frame selection of the ND document.

0	Current frame
1	Time dimension
2	Multipoint dimension
4	Z dimension
15	All frames (the whole ND document).
16	Selection - the frames/dimensions selected by mouse within the ND control bar will be affected.

Note

Value combination is also possible (e.g.: M+T=3, Z+T=5, M+Z=6).

ContourND

Description

 ContourND(
   int  NDTLoop,
   int  NDMPLoop,
   int  NDZLoop
);

This function transforms the binary image to its contour.

Parameters

int NDTLoop

0	apply to the current loop only
1	apply to the whole Time dimension

int NDMPLoop

Apply to Multi Point dimension.

0	apply to the current loop only
1	apply to the whole Multi Point dimension

int NDZLoop

Apply to Z dimension

0	apply to the current loop only
1	apply to the whole Z Series dimension

Note

The binary image is transformed to its contour. It is the inner contour e.g. the binary image after transformation is a subset of the original image.

CutBranches

Interactive command to this function: Binary > Skeleton Morphology > Cut Branches Recursively on Skeleton

Description

 CutBranches(
   int  CutBranchesLength,
   int  NDDimension
);

On a skeletonized binary image, branches (free endings) shorter than the defined length will be removed.

Parameters

int CutBranchesLength

Branch length limit [px].

int NDDimension

Frame selection of the ND document.

0	Current frame
1	Time dimension
2	Multipoint dimension
4	Z dimension
15	All frames (the whole ND document).
16	Selection - the frames/dimensions selected by mouse within the ND control bar will be affected.

Note

Value combination is also possible (e.g.: M+T=3, Z+T=5, M+Z=6).

CutBranchesGa3

Description

 CutBranchesGa3(
   int  iCount,
   int  NDDimension
);

On a skeletonized binary image, branches (free endings) shorter than the defined length will be removed.

Parameters

int iCount

Number of iterations.

int NDDimension

Frame selection of the ND document.

0	Current frame
1	Time dimension
2	Multipoint dimension
4	Z dimension
15	All frames (the whole ND document).
16	Selection - the frames/dimensions selected by mouse within the ND control bar will be affected.

Note

Value combination is also possible (e.g.: M+T=3, Z+T=5, M+Z=6).

See Also
CutBranches

DetectBranching

Interactive command to this function: Binary > Skeleton Morphology > Detect Branching on Skeleton

Description

 DetectBranching();

Creates 1pixel seeds out of a skeletonized binary image which mark positions of the branching points.

DetectBranchingGa3

Description

 DetectBranchingGa3(
   int  NDDimension
);

Creates 1pixel seeds out of a skeletonized binary image. This function serves for automatic recognition of the intersection points of single-pixel lines.

Parameters

int NDDimension

Frame selection of the ND document.

0	Current frame
1	Time dimension
2	Multipoint dimension
4	Z dimension
15	All frames (the whole ND document).
16	Selection - the frames/dimensions selected by mouse within the ND control bar will be affected.

Note

Value combination is also possible (e.g.: M+T=3, Z+T=5, M+Z=6).

DetectBranchingND

Description

 DetectBranchingND(
   int  NDTLoop,
   int  NDMPLoop,
   int  NDZLoop
);

Runs the DetectBranching function on an ND image.

Parameters

int NDTLoop

0	apply to the current loop only
1	apply to the whole Time dimension

int NDMPLoop

Apply to Multi Point dimension.

0	apply to the current loop only
1	apply to the whole Multi Point dimension

int NDZLoop

Apply to Z dimension

0	apply to the current loop only
1	apply to the whole Z Series dimension

DetectEnding

Interactive command to this function: Binary > Skeleton Morphology > Detect Ending on Skeleton

Description

 DetectEnding();

Creates 1pixel seeds out of a skeletonized binary image which mark positions of line-endings.

DetectEndingGa3

Description

 DetectEndingGa3(
   int  NDDimension
);

Purpose of this command is to create 1pixel seeds out of a skeletonized binary image. It preserves only ending points of the skeleton and clears all other pixels.

Parameters

int NDDimension

Frame selection of the ND document.

0	Current frame
1	Time dimension
2	Multipoint dimension
4	Z dimension
15	All frames (the whole ND document).
16	Selection - the frames/dimensions selected by mouse within the ND control bar will be affected.

Note

Value combination is also possible (e.g.: M+T=3, Z+T=5, M+Z=6).

DetectEndingND

Description

 DetectEndingND(
   int  NDTLoop,
   int  NDMPLoop,
   int  NDZLoop
);

Applies the DetectEnding function to an ND image.

Parameters

int NDTLoop

0	apply to the current loop only
1	apply to the whole Time dimension

int NDMPLoop

Apply to Multi Point dimension.

0	apply to the current loop only
1	apply to the whole Multi Point dimension

int NDZLoop

Apply to Z dimension

0	apply to the current loop only
1	apply to the whole Z Series dimension

DilateBinary

Interactive command to this function: Binary > Dilate

Description

 DilateBinary(
   int  Count,
   int  MatrixType
);

This function performs morphologic dilation on a binary image. An interactive equivalent is the _DilateBinary function.

Parameters

int Count

Number of iterations.

int MatrixType

Type of the structuring element used for the processing with the center in the enhanced pixel.

2
3
4
5

DilateBinaryGa3

Description

 DilateBinaryGa3(
   int  iCount,
   int  iMatrix,
   int  NDDimension
);

This General Analysis 3 function performs morphologic dilation on a binary image.

Parameters

int iCount

Number of iterations.

int iMatrix

Type of the structuring element used for the processing with the center in the enhanced pixel.

2
3
4
5

int NDDimension

Frame selection of the ND document.

0	Current frame
1	Time dimension
2	Multipoint dimension
4	Z dimension
15	All frames (the whole ND document).
16	Selection - the frames/dimensions selected by mouse within the ND control bar will be affected.

Note

Value combination is also possible (e.g.: M+T=3, Z+T=5, M+Z=6).

DilateBinaryND

Description

 DilateBinaryND(
   int  Count,
   int  MatrixType,
   int  NDTLoop,
   int  NDMPLoop,
   int  NDZLoop
);

This function performs morphologic dilation on binary images of the current ND document.

Parameters

int Count

Number of iterations.

int MatrixType

Type of the structuring element used for the processing with the center in the enhanced pixel.

2
3
4
5

int NDTLoop

0	apply to the current loop only
1	apply to the whole Time dimension

int NDMPLoop

Apply to Multi Point dimension.

0	apply to the current loop only
1	apply to the whole Multi Point dimension

int NDZLoop

Apply to Z dimension

0	apply to the current loop only
1	apply to the whole Z Series dimension

ErodeBinary

Interactive command to this function: Binary > Erode

Description

 ErodeBinary(
   int  Count,
   int  MatrixType
);

This function transforms current binary image by morphological erosions. An interactive equivalent is the _ErodeBinary function.

Parameters

int Count

Number of iterations.

int MatrixType

Type of the structuring element used for the processing with the center in the enhanced pixel.

2
3
4
5

ErodeBinaryGa3

Description

 ErodeBinaryGa3(
   int  iCount,
   int  iMatrix,
   int  NDDimension
);

This General Analysis 3 function transforms the current binary image by morphological erosions. iCount parameter is the number of subsequently applied elementary erosions followed by the same number of elementary dilations.

Parameters

int iCount

Number of iterations.

int iMatrix

Type of the structuring element used for the processing with the center in the enhanced pixel.

2
3
4
5

int NDDimension

Frame selection of the ND document.

0	Current frame
1	Time dimension
2	Multipoint dimension
4	Z dimension
15	All frames (the whole ND document).
16	Selection - the frames/dimensions selected by mouse within the ND control bar will be affected.

Note

Value combination is also possible (e.g.: M+T=3, Z+T=5, M+Z=6).

ErodeBinaryND

Description

 ErodeBinaryND(
   int  Count,
   int  MatrixType,
   int  NDTLoop,
   int  NDMPLoop,
   int  NDZLoop
);

This function transforms binary images of the current ND document by morphological erosions.

Parameters

int Count

Number of iterations.

int MatrixType

Type of the structuring element used for the processing with the center in the enhanced pixel.

2
3
4
5

int NDTLoop

0	apply to the current loop only
1	apply to the whole Time dimension

int NDMPLoop

Apply to Multi Point dimension.

0	apply to the current loop only
1	apply to the whole Multi Point dimension

int NDZLoop

Apply to Z dimension

0	apply to the current loop only
1	apply to the whole Z Series dimension

FillHoles

Interactive command to this function: Binary > Fill Holes

Description

 FillHoles();

This function fills holes in the binary image.

FillHolesGa3

Description

 FillHolesGa3(
   int  NDDimension
);

This General Analysis 3 function fills holes in the binary image.

Parameters

int NDDimension

Frame selection of the ND document.

0	Current frame
1	Time dimension
2	Multipoint dimension
4	Z dimension
15	All frames (the whole ND document).
16	Selection - the frames/dimensions selected by mouse within the ND control bar will be affected.

Note

Value combination is also possible (e.g.: M+T=3, Z+T=5, M+Z=6).

FillHolesND

Description

 FillHolesND(
   int  NDTLoop,
   int  NDMPLoop,
   int  NDZLoop
);

This function fills holes in the binary image.

Parameters

int NDTLoop

0	apply to the current loop only
1	apply to the whole Time dimension

int NDMPLoop

Apply to Multi Point dimension.

0	apply to the current loop only
1	apply to the whole Multi Point dimension

int NDZLoop

Apply to Z dimension

0	apply to the current loop only
1	apply to the whole Z Series dimension

OpenBinary

Interactive command to this function: Binary > Open

Description

 OpenBinary(
   int  Count,
   int  MatrixType
);

This function transforms current binary image by morphological opening. An interactive equivalent is the _OpenBinary function.

Parameters

int Count

Number of iterations.

int MatrixType

Type of the structuring element used for the processing with the center in the enhanced pixel.

2
3
4
5

Note

Morphological opening is erosion followed by a dilation by the same amount. It removes small objects and fine structures from the binary image while larger structures are not significantly affected.

OpenBinaryGa3

Description

 OpenBinaryGa3(
   int  iCount,
   int  iMatrix,
   int  NDDimension
);

This General Analysis 3 function transforms the current binary image by morphological opening. iCount is the number of subsequently applied elementary erosions followed by the same number of elementary dilations.

Parameters

int iCount

Number of iterations.

int iMatrix

Type of the structuring element used for the processing with the center in the enhanced pixel.

2
3
4
5

int NDDimension

Frame selection of the ND document.

0	Current frame
1	Time dimension
2	Multipoint dimension
4	Z dimension
15	All frames (the whole ND document).
16	Selection - the frames/dimensions selected by mouse within the ND control bar will be affected.

Note

Value combination is also possible (e.g.: M+T=3, Z+T=5, M+Z=6).

OpenBinaryND

Description

 OpenBinaryND(
   int  Count,
   int  MatrixType,
   int  NDTLoop,
   int  NDMPLoop,
   int  NDZLoop
);

This function transforms binary images of the current ND document by morphological opening.

Parameters

int Count

Number of iterations.

int MatrixType

Type of the structuring element used for the processing with the center in the enhanced pixel.

2
3
4
5

int NDTLoop

0	apply to the current loop only
1	apply to the whole Time dimension

int NDMPLoop

Apply to Multi Point dimension.

0	apply to the current loop only
1	apply to the whole Multi Point dimension

int NDZLoop

Apply to Z dimension

0	apply to the current loop only
1	apply to the whole Z Series dimension

Note

Morphological opening is erosion followed by a dilation by the same amount. It removes small objects and fine structures from the binary image while larger structures are not significantly affected.

VanishObjects

Interactive command to this function: Binary > Skeleton Morphology > Vanish Objects on Skeleton

Description

 VanishObjects(
   int  VanishObjectsEquiDia,
   int  UseGaborInstead,
   int  VN_MaxMeanInt,
   int  NDDimension
);

On a skeletonized image, circular (enclosed) objects with equivalent diameter (VanishObjectsEquiDia) smaller than the defined value will be deleted. Concurrently objects with their border stronger than the defined value (VN_MaxMeanInt) will be kept.

Parameters

int VanishObjectsEquiDia

Equivalent diameter of a circular object. Objects with a smaller than the defined value will be deleted.

int UseGaborInstead

0	Leave the image as is and evaluate edge strength.
1	Apply Gabor edge detection to the image before evaluating the edge strength.

int VN_MaxMeanInt

Threshold value for deletion.

int NDDimension

Frame selection of the ND document.

0	Current frame
1	Time dimension
2	Multipoint dimension
4	Z dimension
15	All frames (the whole ND document).
16	Selection - the frames/dimensions selected by mouse within the ND control bar will be affected.

Note

Value combination is also possible (e.g.: M+T=3, Z+T=5, M+Z=6).

_CleanBinary

This function runs the Binary > Clean command.

Description

 _CleanBinary();

The function displays the Clean on Binary Image dialog box.

_CleanBinaryGa3

Description

 _CleanBinaryGa3();

This function opens the Clean Binary dialog window. Click on the help button in the dialog for more information.

_CloseBinary

This function runs the Binary > Close command.

Description

 _CloseBinary();

This function displays the Close on Binary Image dialog box.

_CloseBinaryGa3

Description

 _CloseBinaryGa3();

This function opens the Close Binary dialog window. Click on the help button in the dialog for more information.

_CloseHolesBinaryGa3

Description

 _CloseHolesBinaryGa3();

This function opens the Close Holes Binary dialog window. Click on the help button in the dialog for more information.

_ConnectEndings

This function runs the Binary > Skeleton Morphology > Connect Free Endings on Skeleton command.

Description

 _ConnectEndings();

Connects branch peaks on a skeletonized image.

_Contour

This function runs the Binary > Detect > Contour command.

Description

 _Contour();

This function equals the Contour function except when performed on ND2 document you will be prompt to select whether to process the current image, selected dimension, or the whole ND document.

Note

The binary image is transformed to its contour. It is the inner contour e.g. the binary image after transformation is a subset of the original image.

_ContourGa3

Description

 _ContourGa3();

Opens the Contour dialog window.

See Also
ContourGa3

_CutBranches

This function runs the Binary > Skeleton Morphology > Cut Branches Recursively on Skeleton command.

Description

 _CutBranches();

Removes branches (free endings) shorter than the defined length on a skeletonized binary image.

_CutBranchesGa3

Description

 _CutBranchesGa3();

Opens the Cut Branches dialog window.

See Also
CutBranchesGa3

_DetectBranching

This function runs the Binary > Skeleton Morphology > Detect Branching on Skeleton command.

Description

 _DetectBranching();

Creates 1pixel seeds out of a skeletonized binary image which mark branching points. A dialog window appears if the current document is of ND type.

_DetectBranchingGa3

Description

 _DetectBranchingGa3();

Opens the Detect Branching dialog window.

See Also
DetectBranchingGa3

_DetectEnding

This function runs the Binary > Skeleton Morphology > Detect Ending on Skeleton command.

Description

 _DetectEnding();

Creates 1pixel seeds out of a skeletonized binary image which mark positions of the binary line-endings. A dialog window appears if the current document is of ND type.

_DetectEndingGa3

Description

 _DetectEndingGa3();

Opens the Detect Endings dialog window.

See Also
DetectEndingGa3

_DilateBinary

This function runs the Binary > Dilate command.

Description

 _DilateBinary();

This function displays the Dilate on Binary Image dialog box.

_DilateBinaryGa3

Description

 _DilateBinaryGa3();

This function opens the Dilate Binary dialog window. Click on the help button inside the dialog for more information.

_ErodeBinary

This function runs the Binary > Erode command.

Description

 _ErodeBinary();

This function displays the Erode on Binary Image dialog box.

_ErodeBinaryGa3

Description

 _ErodeBinaryGa3();

This function opens the Erode Binary dialog window. Click on the help button in the dialog for more information.

_FillHoles

This function runs the Binary > Fill Holes command.

Description

 _FillHoles();

This function equals the FillHoles function except when performed on ND2 document you will be prompt to select whether to process the current image, selected dimension, or the whole ND document.

_FillHolesGa3

Description

 _FillHolesGa3();

This function opens the Fill Holes dialog window. Click on the help button in the dialog for more information.

_OpenBinary

This function runs the Binary > Open command.

Description

 _OpenBinary();

This function displays Open binary Image dialog box.

_OpenBinaryGa3

Description

 _OpenBinaryGa3();

This function opens the Open Binary dialog window. Click on the help button in the dialog for more information.

_VanishObjects

This function runs the Binary > Skeleton Morphology > Vanish Objects on Skeleton command.

Description

 _VanishObjects();

Opens the Vanish Objects dialog window.

Morphology🔗

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Morphology