Recent changes to PluginList

PluginList modified by vISTe

vISTe — Wed, 29 May 2013 16:50:17 -0000

--- v15
+++ v16
@@ -33,7 +33,7 @@
 ROIEdit | Allows the user to draw 2D Regions of Interest, which can be used for filtering and seeding. ROI drawing sequence: New button - Start Drawing button - draw the roi in 2D windows - Stop Drawing button. This ROI can be used in other pllugins (e.g. Fiber Tracking plugin)
 Seeding | Generates seed points within 2D ROIs. Also supports volume seeding and fiber seeding.
 StructuredPointsReader | Read data stored in the Structured Points format of VTK.
-TransferFunction | Allows the user to create and modify Transfer Functions, which are used for coloring visualization components. New Transfer Function sequence: New button- Add Opacity Function - Add points by Right Mouse click and the second right click changes the color. Transfer function can be selected from the combobox in Planes plugin.
+TransferFunction | Allows the user to create and modify Transfer Functions, which are used for coloring visualization components. New Transfer Function sequence: New button- Add Opacity Function - Add points by Right Mouse click and the second right click changes the color. Transfer function can be selected from the combobox in Planes plugin or Ray Casting plugin.
 TransferFunctionReader | Reads Transfer Functions created with the Transfer Function plugin.
 Transformation | Transforms data sets. For example, allows the user to mirror an image.
 VolumeReader | Reads the ".vol" file format, which is used to store scalar volumes. ".vol" is the header file, binary data file should be at the same directory.

PluginList modified by vISTe

vISTe — Wed, 29 May 2013 14:50:05 -0000

--- v14
+++ v15
@@ -23,10 +23,10 @@
 HARDIConverter | Convert HARDI data from one format to another (e.g., from Spherical Harmonics to Discrete Sphere Functions).
 HARDIConvolutions | Enhance HARDI data using 3D kernel-based convolution.
 HARDIMeasures | Compute scalar measures for HARDI data (stored in Discrete Sphere Function-format).
-HARDIReader | Read the ".hardi" file format, which stores HARDI data in Discrete Sphere Function-format.
+HARDIReader | Read the raw ".hardi" and ".sharm" files. These files are headers of raw files. The headers ".hardi"and ".sharm" which store HARDI data as Discrete Sphere and Spherical Harmonics model parameters respectively. NiftiReaderPlugin also can read HARDI data given as a Nifti file. Spherical Harmonics data can be converted to Discrete Sphere by HARDIConverter plugin. 
 IllustrativeClusters | Visualizes fiber data sets using simplified shapes, allowing for clear distinction between different clusters.
-NiftiReader | Read data from NIfTI files. Includes support for scalar volumes, DTI data, and HARDI data (DSF and SH). Following the format described in the paper [Loni MIND: Metadata for DWI](http://www.sciencedirect.com/science/article/pii/S1053811910002569)
-NiftiWriter | Saves the DTI and Scalar images in Nifti Format. Saves HARDI representations (i.e. Discrete Sphere or Spherical Harmonics) in Nifti Mind format.
+NiftiReader | Read data from NIfTI files. Includes support for scalar volumes, DTI data, and HARDI data (DSF and SH). Following the format described in the paper [Loni MIND: Metadata for DWI](http://www.sciencedirect.com/science/article/pii/S1053811910002569) If the input consists Spherical Harmonic coefficients then it can be converted to Discrete Sphere parameters and used during the runtime of vIST/e. 
+NiftiWriter | Saves the DTI and Scalar images in Nifti Format. Saves HARDI representations (i.e. Discrete Sphere or Spherical Harmonics) in Nifti Mind format. 
 [PlanesVisualization](TutorialPlanesVisualization) | Draws three movable orthogonal slices, which are used to visualize DTI data or scalar volumes. Transfer functions created in Transfer Function plugin can be selected optionally from the combo box of the plugin GUI.
 PolyDataReader | Used for reading fibers (".fbs") and Regions of Interest (".pol" and ".sr").
 RayCast | Uses powerful GPU shaders to render 3D volumes.

PluginList modified by vISTe

vISTe — Wed, 29 May 2013 11:24:13 -0000

--- v13
+++ v14
@@ -9,7 +9,7 @@
 Clustering | Allows the user to merge clusters of an oversegmented fiber data set.
 ConnectivityMeasures | Quantifies the connectivity strength of fibers, allowing the user to select only the strongest fibers
 Crop3D | Crops the 3D data. The cropped image can be selected using the combo box in Planes Visualisation.
-DTIMeasures | Computes scalar measures from DTI data sets (e.g., Fractional Anisotropy, Mean Diffusivity).
+DTIMeasures | Computes scalar measures from DTI data sets (e.g., Fractional Anisotropy, Mean Diffusivity). If scalar measures will be used for DTI visualisation, the measure or the weighting scalar volume for color coding is selected in Planes plugin. 
 DTIReader | Reads DTI data stored in the ".dti" file format which is actually a text header file. The 6 binary files should be in the same directory.
 FiberCutting | Allows the user to manually resize tracked fibers.
 FiberFilter | Filter fibers through one or more Regions of Interest.

PluginList modified by vISTe

vISTe — Wed, 29 May 2013 11:18:35 -0000

--- v12
+++ v13
@@ -16,7 +16,7 @@
 FiberOutput | Exports fiber data (like local scalar measure values and average length) to Excel files or text files.
 FiberTracking | Track fibers using DTI data. Various methods are supported, including Streamline Tracking, Whole Volume Seeding, and Geodesic Ray-Tracing.
 FiberTrackingCUDA | Same features as the Fiber Tracking plugin, but with CUDA-based accelleration for Geodesic Ray-Tracing.
-FiberVisualization | Visualizes fibers. Includes various options for changing the fiber color and shape.
+FiberVisualization | Visualizes fibers. Includes various options for changing the fiber color and shape. Different Region of interests created by ROI Edit plugin can be used for seeding.
 GeometryGlyphs | Creates 3D glyphs from HARDI data. Supports both Discrete Sphere Function-data and Spherical Harmonics data.
 GPUGlyphs | Draws glyphs for DTI and Spherical Harmonics (4-th order) using a GPU shader.
 HARDI Fiber Tracking | HARDI Fiber Tracking Plugin uses a deterministic tracking algorithm, inputs can be spherical harmonics coefficients or discrete sphere. 
@@ -27,7 +27,7 @@
 IllustrativeClusters | Visualizes fiber data sets using simplified shapes, allowing for clear distinction between different clusters.
 NiftiReader | Read data from NIfTI files. Includes support for scalar volumes, DTI data, and HARDI data (DSF and SH). Following the format described in the paper [Loni MIND: Metadata for DWI](http://www.sciencedirect.com/science/article/pii/S1053811910002569)
 NiftiWriter | Saves the DTI and Scalar images in Nifti Format. Saves HARDI representations (i.e. Discrete Sphere or Spherical Harmonics) in Nifti Mind format.
-[PlanesVisualization](TutorialPlanesVisualization) | Draws three movable orthogonal slices, which are used to visualize DTI data or scalar volumes.
+[PlanesVisualization](TutorialPlanesVisualization) | Draws three movable orthogonal slices, which are used to visualize DTI data or scalar volumes. Transfer functions created in Transfer Function plugin can be selected optionally from the combo box of the plugin GUI.
 PolyDataReader | Used for reading fibers (".fbs") and Regions of Interest (".pol" and ".sr").
 RayCast | Uses powerful GPU shaders to render 3D volumes.
 ROIEdit | Allows the user to draw 2D Regions of Interest, which can be used for filtering and seeding. ROI drawing sequence: New button - Start Drawing button - draw the roi in 2D windows - Stop Drawing button. This ROI can be used in other pllugins (e.g. Fiber Tracking plugin)

PluginList modified by vISTe

vISTe — Wed, 29 May 2013 10:18:57 -0000

--- v11
+++ v12
@@ -33,7 +33,7 @@
 ROIEdit | Allows the user to draw 2D Regions of Interest, which can be used for filtering and seeding. ROI drawing sequence: New button - Start Drawing button - draw the roi in 2D windows - Stop Drawing button. This ROI can be used in other pllugins (e.g. Fiber Tracking plugin)
 Seeding | Generates seed points within 2D ROIs. Also supports volume seeding and fiber seeding.
 StructuredPointsReader | Read data stored in the Structured Points format of VTK.
-TransferFunction | Allows the user to create and modify Transfer Functions, which are used for coloring visualization components. New Transfer Function sequence: New button- Add Opacity Function - Add points by Right Mouse click and the second right click changes the color. Transfer function can be selected from the combobox on planes plugin.
+TransferFunction | Allows the user to create and modify Transfer Functions, which are used for coloring visualization components. New Transfer Function sequence: New button- Add Opacity Function - Add points by Right Mouse click and the second right click changes the color. Transfer function can be selected from the combobox in Planes plugin.
 TransferFunctionReader | Reads Transfer Functions created with the Transfer Function plugin.
 Transformation | Transforms data sets. For example, allows the user to mirror an image.
 VolumeReader | Reads the ".vol" file format, which is used to store scalar volumes. ".vol" is the header file, binary data file should be at the same directory.

PluginList modified by vISTe

vISTe — Wed, 29 May 2013 10:18:19 -0000

--- v10
+++ v11
@@ -33,7 +33,7 @@
 ROIEdit | Allows the user to draw 2D Regions of Interest, which can be used for filtering and seeding. ROI drawing sequence: New button - Start Drawing button - draw the roi in 2D windows - Stop Drawing button. This ROI can be used in other pllugins (e.g. Fiber Tracking plugin)
 Seeding | Generates seed points within 2D ROIs. Also supports volume seeding and fiber seeding.
 StructuredPointsReader | Read data stored in the Structured Points format of VTK.
-TransferFunction | Allows the user to create and modify Transfer Functions, which are used for coloring visualization components. New Transfer Function sequence: New button- Add Opacity Function - Add points by Right Mouse click and the second right click changes the color. Transfer function is usable in other plugins anymore.
+TransferFunction | Allows the user to create and modify Transfer Functions, which are used for coloring visualization components. New Transfer Function sequence: New button- Add Opacity Function - Add points by Right Mouse click and the second right click changes the color. Transfer function can be selected from the combobox on planes plugin.
 TransferFunctionReader | Reads Transfer Functions created with the Transfer Function plugin.
 Transformation | Transforms data sets. For example, allows the user to mirror an image.
 VolumeReader | Reads the ".vol" file format, which is used to store scalar volumes. ".vol" is the header file, binary data file should be at the same directory.

PluginList modified by vISTe

vISTe — Wed, 29 May 2013 08:59:26 -0000

--- v9
+++ v10
@@ -33,7 +33,7 @@
 ROIEdit | Allows the user to draw 2D Regions of Interest, which can be used for filtering and seeding. ROI drawing sequence: New button - Start Drawing button - draw the roi in 2D windows - Stop Drawing button. This ROI can be used in other pllugins (e.g. Fiber Tracking plugin)
 Seeding | Generates seed points within 2D ROIs. Also supports volume seeding and fiber seeding.
 StructuredPointsReader | Read data stored in the Structured Points format of VTK.
-TransferFunction | Allows the user to create and modify Transfer Functions, which are used for coloring visualization components.
+TransferFunction | Allows the user to create and modify Transfer Functions, which are used for coloring visualization components. New Transfer Function sequence: New button- Add Opacity Function - Add points by Right Mouse click and the second right click changes the color. Transfer function is usable in other plugins anymore.
 TransferFunctionReader | Reads Transfer Functions created with the Transfer Function plugin.
 Transformation | Transforms data sets. For example, allows the user to mirror an image.
 VolumeReader | Reads the ".vol" file format, which is used to store scalar volumes. ".vol" is the header file, binary data file should be at the same directory.

PluginList modified by vISTe

vISTe — Wed, 29 May 2013 08:54:47 -0000

--- v8
+++ v9
@@ -30,7 +30,7 @@
 [PlanesVisualization](TutorialPlanesVisualization) | Draws three movable orthogonal slices, which are used to visualize DTI data or scalar volumes.
 PolyDataReader | Used for reading fibers (".fbs") and Regions of Interest (".pol" and ".sr").
 RayCast | Uses powerful GPU shaders to render 3D volumes.
-ROIEdit | Allows the user to draw 2D Regions of Interest, which can be used for filtering and seeding.
+ROIEdit | Allows the user to draw 2D Regions of Interest, which can be used for filtering and seeding. ROI drawing sequence: New button - Start Drawing button - draw the roi in 2D windows - Stop Drawing button. This ROI can be used in other pllugins (e.g. Fiber Tracking plugin)
 Seeding | Generates seed points within 2D ROIs. Also supports volume seeding and fiber seeding.
 StructuredPointsReader | Read data stored in the Structured Points format of VTK.
 TransferFunction | Allows the user to create and modify Transfer Functions, which are used for coloring visualization components.

PluginList modified by vISTe

vISTe — Tue, 21 May 2013 13:33:23 -0000

--- v7
+++ v8
@@ -36,5 +36,5 @@
 TransferFunction | Allows the user to create and modify Transfer Functions, which are used for coloring visualization components.
 TransferFunctionReader | Reads Transfer Functions created with the Transfer Function plugin.
 Transformation | Transforms data sets. For example, allows the user to mirror an image.
-VolumeReader | Reads the ".vol" file format, which is used to store scalar volumes.
+VolumeReader | Reads the ".vol" file format, which is used to store scalar volumes. ".vol" is the header file, binary data file should be at the same directory. 
 VTIReader | Reads the VTK Image Data file format (".vti"), DTI tensor volume saved as .vti can also be read.

PluginList modified by vISTe

vISTe — Tue, 21 May 2013 13:32:04 -0000

--- v6
+++ v7
@@ -10,7 +10,7 @@
 ConnectivityMeasures | Quantifies the connectivity strength of fibers, allowing the user to select only the strongest fibers
 Crop3D | Crops the 3D data. The cropped image can be selected using the combo box in Planes Visualisation.
 DTIMeasures | Computes scalar measures from DTI data sets (e.g., Fractional Anisotropy, Mean Diffusivity).
-DTIReader | Reads DTI data stored in the ".dti" file format.
+DTIReader | Reads DTI data stored in the ".dti" file format which is actually a text header file. The 6 binary files should be in the same directory.
 FiberCutting | Allows the user to manually resize tracked fibers.
 FiberFilter | Filter fibers through one or more Regions of Interest.
 FiberOutput | Exports fiber data (like local scalar measure values and average length) to Excel files or text files.
@@ -37,4 +37,4 @@
 TransferFunctionReader | Reads Transfer Functions created with the Transfer Function plugin.
 Transformation | Transforms data sets. For example, allows the user to mirror an image.
 VolumeReader | Reads the ".vol" file format, which is used to store scalar volumes.
-VTIReader | Reads the VTK Image Data file format (".vti").
+VTIReader | Reads the VTK Image Data file format (".vti"), DTI tensor volume saved as .vti can also be read.