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BoneJ Users and Developers

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This group is now closed to new members, topics and replies. Questions should be directed to forum.imagej.net, using the 'bonej' tag.

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10/23/15

The BoneJ group is migrating to forum.imagej.net

Dear BoneJ-ers The time has come to move on to a new forum for discussing BoneJ-related issues. The

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The BoneJ group is migrating to forum.imagej.net

Dear BoneJ-ers The time has come to move on to a new forum for discussing BoneJ-related issues. The

10/23/15

10/26/15

Do not use Structure Model Index (SMI) for measuring plates and rods

Dear all, SMI has been included in BoneJ since its early releases, because it was a standard

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Do not use Structure Model Index (SMI) for measuring plates and rods

Dear all, SMI has been included in BoneJ since its early releases, because it was a standard

10/26/15

Kalle Lehto, … Michael Doube4

10/26/15

BoneJ Particle Analyzer NaN in Ellipsoid Major, Int. and Minor radius

Hi Kalle, The code has a clue. The default value for the result entry is NaN. If the ellipsoid

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BoneJ Particle Analyzer NaN in Ellipsoid Major, Int. and Minor radius

Hi Kalle, The code has a clue. The default value for the result entry is NaN. If the ellipsoid

10/26/15

tommaso Banzato, Timo Rantalainen2

10/26/15

Bone J and conventional (clinical) CT scans

Hello Tommaso, > I am trini to run the analysis on conventional CT images in DICOM format but >

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Bone J and conventional (clinical) CT scans

Hello Tommaso, > I am trini to run the analysis on conventional CT images in DICOM format but >

10/26/15

Behdad Pouran, … Michael Doube4

10/14/15

Changing pixel values in a stack

Additionally, Z should be initialised to: Z = nSlices(); getSliceNumber() returns the index of the

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Changing pixel values in a stack

Additionally, Z should be initialised to: Z = nSlices(); getSliceNumber() returns the index of the

10/14/15

Richard Domander

10/12/15

A new developer on the BoneJ team

Hi everyone, I'm Richard, and I started last Monday (October 5th) as the research software

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A new developer on the BoneJ team

Hi everyone, I'm Richard, and I started last Monday (October 5th) as the research software

10/12/15

10/9/15

Measuring bone density and ratio of new bone formation, by microCT TIFF images

I am learning to use imageJ and BoneJ, but i need desperately help I did some experiments in a rabbit

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Measuring bone density and ratio of new bone formation, by microCT TIFF images

I am learning to use imageJ and BoneJ, but i need desperately help I did some experiments in a rabbit

10/9/15

Waldir Leite Roque, Michael Doube2

9/21/15

Anisotropy plugin output

Dear Waldir, 1. The eigenvalues ("fabric tensor values") cannot be calculated from the

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Anisotropy plugin output

Dear Waldir, 1. The eigenvalues ("fabric tensor values") cannot be calculated from the

9/21/15

hb...@cornell.edu, Michael Doube2

9/20/15

Tb.Sp not showing up in Results table

Hi Heather, It might be that Spacing is not finishing because there is a lot of empty space outside

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Tb.Sp not showing up in Results table

Hi Heather, It might be that Spacing is not finishing because there is a lot of empty space outside

9/20/15

SHARON SCARLAT, … Daniel J Schiferl7

9/16/15

Recurrent Errors with Density Distribution Analysis

Sharon, I have used pQCT animal systems if you're looking. I've also attached my latest bone

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Recurrent Errors with Density Distribution Analysis

Sharon, I have used pQCT animal systems if you're looking. I've also attached my latest bone

9/16/15

Mark Begonia, Michael Doube2

9/13/15

BoneJ Analysis of DICOM vs. Bitmap Stacks

Hi Mark > I have used BoneJ extensively to analyze the area moments of inertia You mean the second

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BoneJ Analysis of DICOM vs. Bitmap Stacks

Hi Mark > I have used BoneJ extensively to analyze the area moments of inertia You mean the second

9/13/15

Michael Doube, Ayman Mostafa3

9/7/15

BoneJ 1.4.1 released

Dear Ayman, The short answer is no. The radiograph is recording an integral of point-by-point X-ray

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BoneJ 1.4.1 released

Dear Ayman, The short answer is no. The radiograph is recording an integral of point-by-point X-ray

9/7/15

Mahmoudi Sidi Ahmed

8/24/15

Check Histogram values

Dear members, I would like to check in a separated file (as result.txt) the values of my calculted

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Check Histogram values

Dear members, I would like to check in a separated file (as result.txt) the values of my calculted

8/24/15

Mahmoudi Sidi Ahmed

8/21/15

Check the Hisgram values

Dear members, I would like to check in a separated file (as result.txt) the values of my calculted

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Check the Hisgram values

Dear members, I would like to check in a separated file (as result.txt) the values of my calculted

8/21/15

Yi-Ling Lin, Michael Doube3

8/5/15

ROI as a separate stack

Thank you! I will try it. Yi-Ling On Tuesday, August 4, 2015 at 12:12:51 AM UTC-7, Yi-Ling Lin wrote:

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ROI as a separate stack

Thank you! I will try it. Yi-Ling On Tuesday, August 4, 2015 at 12:12:51 AM UTC-7, Yi-Ling Lin wrote:

8/5/15

Sarah Smet, Michael Doube2

8/4/15

How much RAM do I need ?

Dear Sarah, Could you please tell us: - Your operating system - Java version (Help > About ImageJ)

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How much RAM do I need ?

Dear Sarah, Could you please tell us: - Your operating system - Java version (Help > About ImageJ)

8/4/15

David PASTORINO, … Nicolas ANNE-ARCHARD5

7/23/15

ROI with holes - Problem using the Trabecular Thickness and Spacing measurement

Thanks for your fast answer! Good and functional idea! You've understood correctly! Feeling a bit

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ROI with holes - Problem using the Trabecular Thickness and Spacing measurement

Thanks for your fast answer! Good and functional idea! You've understood correctly! Feeling a bit

7/23/15

7/23/15

Job opening: Research Software Engineer for BoneJ

BoneJ2 - full-featured next-generation BoneJ for standardised bone image analysis http://jobs.rvc.ac.

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Job opening: Research Software Engineer for BoneJ

BoneJ2 - full-featured next-generation BoneJ for standardised bone image analysis http://jobs.rvc.ac.

7/23/15

6/17/15

BoneJ2 development funded by Wellcome Trust

Dear all, It is my great pleasure to announce that BoneJ has just received backing from the Wellcome

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BoneJ2 development funded by Wellcome Trust

Dear all, It is my great pleasure to announce that BoneJ has just received backing from the Wellcome

6/17/15

Mahmoudi Sidi Ahmed, Michael Doube2

6/15/15

ImageJ 3D Viewer

Hi Sidi, Thanks for pointing this out. I've copied a version of 3D viewer from my laptop onto the

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ImageJ 3D Viewer

Hi Sidi, Thanks for pointing this out. I've copied a version of 3D viewer from my laptop onto the

6/15/15

6/10/15

How to measure anisotropy in HR-PCT dicoms?

Hi folks, Thanks for any help with this. Here's what I'm trying to do: I have image stacks of

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How to measure anisotropy in HR-PCT dicoms?

Hi folks, Thanks for any help with this. Here's what I'm trying to do: I have image stacks of

6/10/15

Anna, … michae...@gmail.com4

5/29/15

Validate the Second Moment of Area by using known geometry

Check your pixel calibration. On Fri May 29 17:38:24 2015 GMT+0100, Shafini Mohamad wrote: > Dear

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Validate the Second Moment of Area by using known geometry

Check your pixel calibration. On Fri May 29 17:38:24 2015 GMT+0100, Shafini Mohamad wrote: > Dear

5/29/15

Anna, Michael Doube3

5/22/15

Second Moment of Area

Dear Michael, Thanks for your help! best regards Ann On 22 May 2015 at 08:14, Michael Doube <

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Second Moment of Area

Dear Michael, Thanks for your help! best regards Ann On 22 May 2015 at 08:14, Michael Doube <

5/22/15

arun kumar, … Michael Doube3

5/22/15

Gabor filter for Batch Processing

Hi Kumar, You should state what you are trying to do and what your problem is. This information is

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Gabor filter for Batch Processing

Hi Kumar, You should state what you are trying to do and what your problem is. This information is

5/22/15

Behdad Pouran, Michael Doube2

5/6/15

MIL Fabric tensors

Hi Behdad, > After activating the record eigen in anisotropy window I received a few numbers

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MIL Fabric tensors

Hi Behdad, > After activating the record eigen in anisotropy window I received a few numbers

5/6/15

Mahmoudi Sidi Ahmed, Michael Doube2

4/27/15

BMD computation. Which Phantom ?

Dear Sidi, You should use phantoms that are appropriate to the materials you are imaging and the

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BMD computation. Which Phantom ?

Dear Sidi, You should use phantoms that are appropriate to the materials you are imaging and the

4/27/15

Emily Yap, … Michael Doube5

4/24/15

Displaying 3D volume using Volume Fraction surface algorithm

Hi Emily, To comment further I'd really need to know: ImageJ / Fiji version (Help > About

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Displaying 3D volume using Volume Fraction surface algorithm

Hi Emily, To comment further I'd really need to know: ImageJ / Fiji version (Help > About

4/24/15

Anna, Michael Doube3

4/22/15

segmentation: thresholding method

Dear Michael, Many thanks! I've tried it and the bone now is 255 and the background=0. It

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segmentation: thresholding method

Dear Michael, Many thanks! I've tried it and the bone now is 255 and the background=0. It

4/22/15

Anna, Ali Ghasem Zadeh3

4/17/15

BV/TV and Tissue Mineral Density

Thanks Ali. Could we use ImageJ to measure tissue mineral density? best, Anna On Tuesday, 14 April

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BV/TV and Tissue Mineral Density

Thanks Ali. Could we use ImageJ to measure tissue mineral density? best, Anna On Tuesday, 14 April

4/17/15

Mahmoudi Sidi Ahmed, michae...@gmail.com2

4/15/15

Tb. N with Bone J

Conn.D is better than Tb.N, because Tb.N makes some assumptions about the underlying geometry which

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Tb. N with Bone J

Conn.D is better than Tb.N, because Tb.N makes some assumptions about the underlying geometry which

4/15/15

Mahmoudi Sidi Ahmed, Michael Doube4

3/26/15

bone J with Netbeans

> Howver, once I include this line code : IJ.runPlugin("ig.plugin.Conectivity", "

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bone J with Netbeans

> Howver, once I include this line code : IJ.runPlugin("ig.plugin.Conectivity", "

3/26/15