Documentation/Nightly/Modules/DWModeling - Revision history

Fedorov at 12:30, 21 March 2016

2016-03-21T12:30:08Z

Fedorov at 19:45, 24 December 2015

2015-12-24T19:45:03Z

Fedorov at 21:01, 2 August 2015

2015-08-02T21:01:53Z

Fedorov at 20:10, 1 August 2015

2015-08-01T20:10:02Z

Fedorov at 16:04, 25 May 2015

2015-05-25T16:04:10Z

Fedorov at 16:02, 25 May 2015

2015-05-25T16:02:05Z

Fedorov at 16:01, 25 May 2015

2015-05-25T16:01:09Z

Fedorov at 20:38, 20 May 2015

2015-05-20T20:38:41Z

Fedorov at 20:38, 20 May 2015

2015-05-20T20:38:04Z

Fedorov at 20:23, 20 May 2015

2015-05-20T20:23:24Z

← Older revision		Revision as of 12:30, 21 March 2016
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	[4] Bennett KM, Schmainda KM, Bennett RT, Rowe DB, Lu H, Hyde JS. Characterization of continuously distributed cortical water diffusion rates with a stretched-exponential model. Magn Reson Med. 2003;50: 727–734. doi:10.1002/mrm.10581		[4] Bennett KM, Schmainda KM, Bennett RT, Rowe DB, Lu H, Hyde JS. Characterization of continuously distributed cortical water diffusion rates with a stretched-exponential model. Magn Reson Med. 2003;50: 727–734. doi:10.1002/mrm.10581
		+
		+	[5] The Minitab Blog: Regression Analysis: How Do I Interpret R-squared and Assess the Goodness-of-Fit? http://blog.minitab.com/blog/adventures-in-statistics/regression-analysis-how-do-i-interpret-r-squared-and-assess-the-goodness-of-fit

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← Older revision		Revision as of 19:45, 24 December 2015
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	{{documentation/{{documentation/version}}/module-section\|Panels and their use}}		{{documentation/{{documentation/version}}/module-section\|Panels and their use}}
−	~~'''Input'''~~
−	* '''Input image''': multivolume node containing multi-b-value trace image loaded using DICOM module
−	* '''Model''': mono-, bi-exponential, kurtosis, stretched exponential and gamma model should be selected
−	* '''Input mask''': segmentation of the region of interest (optional); if specified, model fitting will be performed only within the specified mask
−	* '''B-values to include''': list of b-values that should be used in the fitting process (optional); this parameter is used only if not empty
−	* '''B-values to exclude''': list of b-values that should NOT be used in the fitting process (optional); this parameter is used only if not empty

−	~~'''Output common to all models'''~~
−	* '''Fitted volume''': (output) multi-volume containing the fitted model sampled at the b-values of the input dataset
−	* '''Quality of fit volume''': (optional) R-squared
−
−	~~'''Model-specific outputs'''~~
−	* '''MonoExponential model output'''
−	** '''MonoExp diffusion map'''
−	* '''BiExponential model outputs'''
−	** '''Slow diffusion map'''
−	** '''Fast diffusion map'''
−	** '''Fast diffusion fraction map'''
−	* '''Kurtosis model outputs'''
−	** '''Kurtosis diffusion map'''
−	** '''Kurtosis map'''
−	* '''Stretched exponential model outputs'''
−	** '''Distributed Diffusion Coefficient map'''
−	** '''alpha map'''
−	* '''Gamma model outputs'''
−	** '''theta map'''
−	** '''k map'''

@@ Line 37: / Line 37: @@
 {{documentation/{{documentation/version}}/module-section|Module Description}}
-The purpose of this module is to provide estimation of DWI quantitative parameters using commonly diffusion models. Input data should be a trace DWI image correctly identified as a multivolume by b-value by the Slicer [[Documentation/Nightly/Modules/DICOM|DICOMBrowser]]. The module currently supports mono-exponential, bi-exponential and kurtosis DW models, see [1] for further details on the models.
+The purpose of this module is to provide estimation of DWI quantitative parameters using commonly diffusion models. Input data should be a trace DWI image correctly identified as a multivolume by b-value by the Slicer [[Documentation/Nightly/Modules/DICOM|DICOMBrowser]]. The module currently supports mono-exponential, bi-exponential, kurtosis, stretched exponential and gamma distribution DW models, see references for further details on the models.
 Modeling results can be explored (interactive curve plotting of the input and fitted data) using [[Documentation/Nightly/Modules/MultiVolumeExplorer|MultiVolumeExplorer]] module.
@@ Line 61: / Line 61: @@
 '''Input'''
 * '''Input image''': multivolume node containing multi-b-value trace image loaded using DICOM module
-* '''Model''': mono-, bi-exponential or kurtosis model should be selected
+* '''Model''': mono-, bi-exponential, kurtosis, stretched exponential and gamma model should be selected
 * '''Input mask''': segmentation of the region of interest (optional); if specified, model fitting will be performed only within the specified mask
 * '''B-values to include''': list of b-values that should be used in the fitting process (optional); this parameter is used only if not empty
@@ Line 80: / Line 80: @@
 ** '''Kurtosis diffusion map'''
 ** '''Kurtosis map'''

← Older revision		Revision as of 20:10, 1 August 2015
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	[2] Kobus T., Fedorov A., Tempany C.M., Mulkern R.V., Dunne R., Maier S.E. Bi-exponential Diffusion Analysis in Normal Prostate and Prostate Cancer: Transition Zone and Peripheral Zone Considerations. Proc. of ISMRM 2015. http://www.spl.harvard.edu/abstracts/item/view/168		[2] Kobus T., Fedorov A., Tempany C.M., Mulkern R.V., Dunne R., Maier S.E. Bi-exponential Diffusion Analysis in Normal Prostate and Prostate Cancer: Transition Zone and Peripheral Zone Considerations. Proc. of ISMRM 2015. http://www.spl.harvard.edu/abstracts/item/view/168

		+	[3] Oshio K, Shinmoto H, Mulkern RV. Interpretation of diffusion MR imaging data using a gamma distribution model. Magn Reson Med Sci. 2014;13: 191–195. doi:10.2463/mrms.2014-0016
		+
		+	[4] Bennett KM, Schmainda KM, Bennett RT, Rowe DB, Lu H, Hyde JS. Characterization of continuously distributed cortical water diffusion rates with a stretched-exponential model. Magn Reson Med. 2003;50: 727–734. doi:10.1002/mrm.10581

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@@ Line 50: / Line 50: @@
 {|
-|[[Image:Fitting_example_plot.png|500px|Example of data fitting using bi-exponential model, as shown in MultiVolumeExplorer module]]
+|[[Image:Fitting_example_plot.png|thumb|500px|Example of data fitting using bi-exponential model, as shown in MultiVolumeExplorer module]]
-|[[Image:Fitting_example_plot_log.png|500px|Example of data fitting using bi-exponential model, as shown in MultiVolumeExplorer module, log scale]]
+|[[Image:Fitting_example_plot_log.png|thumb|500px|Example of data fitting using bi-exponential model, as shown in MultiVolumeExplorer module, log scale]]
 |}
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@@ Line 49: / Line 49: @@
 * treatment response assessment
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 {{documentation/{{documentation/version}}/module-section|Tutorials}}

@@ Line 67: / Line 67: @@
 '''Model-specific outputs'''
-* '''MonoExponential model'''
+* '''MonoExponential model output'''
 ** '''MonoExp diffusion map'''
-* '''BiExponential model'''
+* '''BiExponential model outputs'''
 ** '''Slow diffusion map'''
 ** '''Fast diffusion map'''
 ** '''Fast diffusion fraction map'''
-* '''Kurtosis model'''
+* '''Kurtosis model outputs'''
 ** '''Kurtosis diffusion map'''
 ** '''Kurtosis map'''

@@ Line 55: / Line 55: @@
 <!-- ---------------------------- -->
 {{documentation/{{documentation/version}}/module-section|Panels and their use}}
-''Input''
+'''Input'''
-* ''Input image'': multivolume node containing multi-b-value trace image loaded using DICOM module
+* '''Input image''': multivolume node containing multi-b-value trace image loaded using DICOM module
-* ''Model'': mono-, bi-exponential or kurtosis model should be selected
+* '''Model''': mono-, bi-exponential or kurtosis model should be selected
-* ''Input mask'': segmentation of the region of interest (optional); if specified, model fitting will be performed only within the specified mask
+* '''Input mask''': segmentation of the region of interest (optional); if specified, model fitting will be performed only within the specified mask
-* ''B-values to include'': list of b-values that should be used in the fitting process (optional); this parameter is used only if not empty
+* '''B-values to include''': list of b-values that should be used in the fitting process (optional); this parameter is used only if not empty
-* ''B-values to exclude'': list of b-values that should NOT be used in the fitting process (optional); this parameter is used only if not empty
+* '''B-values to exclude''': list of b-values that should NOT be used in the fitting process (optional); this parameter is used only if not empty
 * ''Fitted volume'': (output) multi-volume containing the fitted model sampled at the b-values of the input dataset
-* ''Quality of fit volume'': (optionla) R-squared
+'''Output common to all models'''
 {{documentation/{{documentation/version}}/module-parametersdescription}}

← Older revision		Revision as of 20:23, 20 May 2015
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	* ''Quality of fit volume'': (optionla) R-squared		* ''Quality of fit volume'': (optionla) R-squared

		+	{{documentation/{{documentation/version}}/module-parametersdescription}}

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