Modules:OtsuThreshold-Documentation-3.6 - Revision history

Lorensen at 17:25, 20 April 2010

2010-04-20T17:25:00Z

Lorensen: /* References */

2010-04-20T17:17:20Z

References

Lorensen at 17:14, 20 April 2010

2010-04-20T17:14:43Z

Lorensen: Created page with 'Return to Slicer 3.6 Documentation Gallery of New Features NOTOC ===Module Name=== Otsu Threshold {| |[[Image:O…'

2010-04-20T17:05:25Z

Created page with 'Return to Slicer 3.6 Documentation Gallery of New Features __NOTOC__ ===Module Name=== Otsu Threshold {| |[[Image:O…'

New page

[[Documentation-3.6|Return to Slicer 3.6 Documentation]]

[[Announcements:Slicer3.4#Highlights|Gallery of New Features]]
__NOTOC__
===Module Name===
Otsu Threshold

{|
|[[Image:OtsuThresholdFilter1.png|thumb|280px|CT Grayscale Data]]
|[[Image:OtsuThresholdFilter2.png|thumb|280px|After OtsuThresholdFilter applied with default settings]]
|}

== General Information ==
===Module Type & Category===

Type: CLI

Category: Filtering

===Authors, Collaborators & Contact===
* Author: Bill Lorensen
* Contact: bill.lorensen at gmail.com

===Module Description===
This filter creates a binary thresholded image that separates an image
into foreground and background components. The filter calculates the
optimum threshold separating those two classes so that their combined
spread (intra-class variance) is minimal (see
http://en.wikipedia.org/wiki/Otsu%27s_method). Then the filter
applies that threshold to the input image using the
itkBinaryThresholdImageFilter. The numberOfHistogram bins can be set
for the Otsu Calculator. The insideValue and outsideValue can be set
for the BinaryThresholdImageFilter. The filter produces a labeled
volume.

The original reference is:
N.Otsu, ‘‘A threshold selection method from gray level histograms,’’
IEEE Trans.Syst.ManCybern.SMC-9,62–66 1979.

== Usage ==

===Examples, Use Cases & Tutorials===

* Note use cases for which this module is especially appropriate, and/or link to examples.
* Link to examples of the module's use
* Link to any existing tutorials

===Quick Tour of Features and Use===
List all the panels in your interface, their features, what they mean, and how to use them. For instance:

* '''Input panel:'''
* '''Parameters panel:'''
* '''Output panel:'''
* '''Viewing panel:'''

== Development ==

===Dependencies===

Other modules or packages that are required for this module's use.

===Known bugs===

Follow this [http://na-mic.org/Mantis/main_page.php link] to the Slicer3 bug tracker.

===Usability issues===

Follow this [http://na-mic.org/Mantis/main_page.php link] to the Slicer3 bug tracker. Please select the '''usability issue category''' when browsing or contributing.

===Source code & documentation===

Source Code: [http://www.na-mic.org/ViewVC/index.cgi/trunk/Applications/CLI/OtsuThresholdImageFilter.cxx?view=annotate OtsuThreshold.cxx]

XML Description: [http://www.na-mic.org/ViewVC/index.cgi/trunk/Applications/CLI/OtsuThresholdImageFilter.cxx?view=co OtsuThreshold.xml]

Usage:
<pre>
./OtsuThresholdImageFilter [--processinformationaddress <std::string>]
[--xml] [--echo] [--numberOfBins <int>]
[--outsideValue <int>] [--insideValue <int>]
[--] [--version] [-h] <std::string>
<std::string>

Where:

--processinformationaddress <std::string>
Address of a structure to store process information (progress, abort,
etc.). (default: 0)

--xml
Produce xml description of command line arguments (default: 0)

--echo
Echo the command line arguments (default: 0)

--numberOfBins <int>
The number of bins in the histogram (default: 128)

--outsideValue <int>
The value assigned to pixels that are outside the computed threshold
(default: 255)

--insideValue <int>
The value assigned to pixels that are inside the computed threshold
(default: 0)

--, --ignore_rest
Ignores the rest of the labeled arguments following this flag.

--version
Displays version information and exits.

-h, --help
Displays usage information and exits.

<std::string>
(required) Input volume to be filtered

<std::string>
(required) Output filtered
</pre>

== More Information ==

===Acknowledgment===
This work is part of the National Alliance for Medical Image
Computing (NAMIC), funded by the National Institutes of Health
through the NIH Roadmap for Medical Research, Grant U54 EB005149.
Information on the National Centers for Biomedical Computing
can be obtained from [http://www.ncbcs.org/ National Centers for Biomedical Computing].

===References===

@@ Line 105: / Line 105: @@
 * http://en.wikipedia.org/wiki/Otsu%27s_method
 * http://www.labbookpages.co.uk/software/imgProc/otsuThreshold.html
-* N.Otsu, ‘‘A threshold selection method from gray level histograms,’’ IEEE Trans.Syst.ManCybern.SMC-9,62–66 1979.
+* N.Otsu, [http://web.ics.purdue.edu/~kim497/ece661/OTSU_paper.pdf ‘‘A threshold selection method from gray level histograms,’’ IEEE Trans.Syst.ManCybern.SMC-9,62–66 1979.]

@@ Line 1: / Line 1: @@
 [[Documentation-3.6|Return to Slicer 3.6 Documentation]]
 __NOTOC__
 ===Module Name===

@@ Line 39: / Line 39: @@
 == Usage ==
 <pre>
 ./OtsuThresholdImageFilter  [--processinformationaddress <std::string>]
@@ Line 123: / Line 85: @@
    (required)  Output filtered
 </pre>
 == More Information ==
-===Acknowledgment===
+===Acknowledgement===
 This work is part of the National Alliance for Medical Image
 Computing (NAMIC), funded by the National Institutes of Health
@@ Line 134: / Line 102: @@
 ===References===

Modules:OtsuThreshold-Documentation-3.6 - Revision history

Lorensen at 17:25, 20 April 2010

Lorensen: /* References */

Lorensen at 17:14, 20 April 2010

Lorensen: Created page with 'Return to Slicer 3.6 Documentation Gallery of New Features __NOTOC__ ===Module Name=== Otsu Threshold {| |[[Image:O…'

Lorensen: Created page with 'Return to Slicer 3.6 Documentation Gallery of New Features NOTOC ===Module Name=== Otsu Threshold {| |[[Image:O…'