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Icy imaging

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dariomel, Stephane3

12/27/18

ROI Statistics block ignores feature selections when Icy runs in headless mode

I already had the latest version of Icy. I updated the ROI Statistics plugin to version 5.6.11.0. Now

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ROI Statistics block ignores feature selections when Icy runs in headless mode

I already had the latest version of Icy. I updated the ROI Statistics plugin to version 5.6.11.0. Now

12/27/18

12/12/18

Surface Area of polygon2D

Oh yesss .... Thank you Best Marie Laure Le mercredi 12 décembre 2018 11:30:57 UTC+1, Stephane a

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Surface Area of polygon2D

Oh yesss .... Thank you Best Marie Laure Le mercredi 12 décembre 2018 11:30:57 UTC+1, Stephane a

12/12/18

Igothigh, Stephane3

8/20/18

ROIDescriptor:can not retrieve mean intenity of an ROI

Hi Stéphane, Thanks a lot. It works now. I do not know why it did not work when I changed manually

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ROIDescriptor:can not retrieve mean intenity of an ROI

Hi Stéphane, Thanks a lot. It works now. I do not know why it did not work when I changed manually

8/20/18

pduw, Stephane2

7/27/18

Converting ROI to tracks

Hi, I'm not really sure to understand what you want to do exactly when you say "I would like

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Converting ROI to tracks

Hi, I'm not really sure to understand what you want to do exactly when you say "I would like

7/27/18

Michael Delves, Stephane3

7/3/18

Using the "crop and keep ROI" script for images with multiple ROIs

Hi Stephane, I've been using Crop_sequence_to_ROI but I have irregular polygon ROIs and it only

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Using the "crop and keep ROI" script for images with multiple ROIs

Hi Stephane, I've been using Crop_sequence_to_ROI but I have irregular polygon ROIs and it only

7/3/18

Jean-Yves Tinevez, Fabrice de Chaumont3

2/8/18

Scripting: How to turn SpotDetector output in a list of ROIs?

On Thursday, February 8, 2018 at 5:50:35 PM UTC+1, Fabrice de Chaumont wrote: Hi ! If you can access

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Scripting: How to turn SpotDetector output in a list of ROIs?

On Thursday, February 8, 2018 at 5:50:35 PM UTC+1, Fabrice de Chaumont wrote: Hi ! If you can access

2/8/18

Faaf, Stephane2

2/1/18

grid within a ROI of various shapes

Hi Faaf, Not sure about what you are trying to do exactly but at least by default there is not

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grid within a ROI of various shapes

Hi Faaf, Not sure about what you are trying to do exactly but at least by default there is not

2/1/18

1/16/18

histogram on a ROI for one slide

Hi MLB, Oh ok, to be honest i wasn't sure what you were talking about ^^ Glad you found the

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histogram on a ROI for one slide

Hi MLB, Oh ok, to be honest i wasn't sure what you were talking about ^^ Glad you found the

1/16/18

X. Qin, … nicolas12

1/23/18

Some question about ROI and intensity_background subtracted data

Hi Nicolas, Thank you sooo much for your reply. I have some further questions regarding your

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Some question about ROI and intensity_background subtracted data

Hi Nicolas, Thank you sooo much for your reply. I have some further questions regarding your

1/23/18

Leon de Boer, Stephane3

12/19/17

Add manually drawn ROIs to protocols

Thank you very much! On Tuesday, 19 December 2017 16:26:24 UTC, Stephane wrote: Hi Leon, You just

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active-contours

Add manually drawn ROIs to protocols

Thank you very much! On Tuesday, 19 December 2017 16:26:24 UTC, Stephane wrote: Hi Leon, You just

12/19/17

Juliano Faccioni, Stephane2

11/28/17

Counting cell colonies with Icy

Hi, Given your image it's indeed very complicated to correctly count the number of cell. I made

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Counting cell colonies with Icy

Hi, Given your image it's indeed very complicated to correctly count the number of cell. I made

11/28/17

Yasmine Khalil, … Alexandre Dufour5

1/5/18

pixels' size and distance bto the periphery of a nucleus

No answer...? I think it must be based on the pixels' size along x and y axis, but I'm not

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pixels' size and distance bto the periphery of a nucleus

No answer...? I think it must be based on the pixels' size along x and y axis, but I'm not

1/5/18

Tamlyn Peel, Stephane3

10/27/17

Code behind ROI -> Fill Operation -> Interior

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Code behind ROI -> Fill Operation -> Interior

10/27/17

Debora Keller, Stephane7

10/10/17

Linking active contour ROI names (t>0) to HK means initial ROI (t0)

It's normal, this excel file contains only results for specified ROIS which are the ones coming

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active-contours

Linking active contour ROI names (t>0) to HK means initial ROI (t0)

It's normal, this excel file contains only results for specified ROIS which are the ones coming

10/10/17

Aurélie Martinez

9/14/17

Hi everybody, I'm using ICY/HK-Means/Active Contours to have access to multiple ROIs (nuclei)

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Hi everybody, I'm using ICY/HK-Means/Active Contours to have access to multiple ROIs (nuclei)

9/14/17

9/22/17

How to calculate with my formula

Hi Stephane, Thank you for modifying my protocol. After all, I decided to take the nuclei

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How to calculate with my formula

Hi Stephane, Thank you for modifying my protocol. After all, I decided to take the nuclei

9/22/17

Andrew Seeber, Alexandre Dufour3

8/31/17

Link spot detection to segmented masks over time

Dear Alexandre, Thanks a lot, the "ROI inclusion analysis" does exactly as advertised. I

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Link spot detection to segmented masks over time

Dear Alexandre, Thanks a lot, the "ROI inclusion analysis" does exactly as advertised. I

8/31/17

Yasmine Khalil, … Alexandre Dufour7

8/30/17

Mask positioning

Great! ^^ Thank you, Alexandre. Le mardi 29 août 2017 17:06:32 UTC+2, Alexandre Dufour a écrit : Not

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Mask positioning

Great! ^^ Thank you, Alexandre. Le mardi 29 août 2017 17:06:32 UTC+2, Alexandre Dufour a écrit : Not

8/30/17

8/16/17

Rotate polyline on 3D Roi Tool

Hi MLB, There is no easy way to rotate a ROI currently, 2D Polyline is a Shape internally so you can

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Rotate polyline on 3D Roi Tool

Hi MLB, There is no easy way to rotate a ROI currently, 2D Polyline is a Shape internally so you can

8/16/17

Thomas S, … Stephane6

7/4/17

Issue with ImageJ plug-in (simple neurite tracer) compatability

Unfortunately that is more a problem from ImageJ now... I guess the plugin has been wrote for Fiji

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Issue with ImageJ plug-in (simple neurite tracer) compatability

Unfortunately that is more a problem from ImageJ now... I guess the plugin has been wrote for Fiji

7/4/17

Tamlyn Peel, Stephane3

6/14/17

Create new ROI in Javascript

Great, thanks for the clear explanations! For the life of me I just couldn't work it out. On

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Create new ROI in Javascript

Great, thanks for the clear explanations! For the life of me I just couldn't work it out. On

6/14/17

Yasmine Khalil, … Alexandre Dufour5

5/29/17

Some sampling and detection questions on Active Contour, Wavelet Spot Detector and ROI Inclusion analysis.

Thank you Alexandre, you cleared it up a lot! :D Next time I will seperate my questions, it's

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Some sampling and detection questions on Active Contour, Wavelet Spot Detector and ROI Inclusion analysis.

Thank you Alexandre, you cleared it up a lot! :D Next time I will seperate my questions, it's

5/29/17

Jean-Yves Tinevez, Stephane2

4/26/17

Converting a list of ROIs to a binary mask in a script.

Hi, Definitely Icy prefers ROI over binary image and some plugins only export in ROI then. Still you

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Converting a list of ROIs to a binary mask in a script.

Hi, Definitely Icy prefers ROI over binary image and some plugins only export in ROI then. Still you

4/26/17

louise-laure, Stephane2

4/21/17

Detect and Track 2 synchronized populations of ROI over time

Hi Louise Laure, Sorry for the late reply.. just in case, did you tried this plugin : http://icy.

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Detect and Track 2 synchronized populations of ROI over time

Hi Louise Laure, Sorry for the late reply.. just in case, did you tried this plugin : http://icy.

4/21/17

Julien Pontabry, Alexandre Dufour3

4/3/17

Long computation time for distance map from Mesh 3D ROI

Hi Alexandre, Thanks for the fix. I tried it on a few images and it seems to be a bit faster. However

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Long computation time for distance map from Mesh 3D ROI

Hi Alexandre, Thanks for the fix. I tried it on a few images and it seems to be a bit faster. However

4/3/17

Mike Kress, Alexandre Dufour3

1/25/17

Substract Two ROI Lists

Hi Alexandre, 1) Yes you are right I don't need , I forgot to remove this block "inclusion

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feature-request

Substract Two ROI Lists

Hi Alexandre, 1) Yes you are right I don't need , I forgot to remove this block "inclusion

1/25/17

Mike Kress, Alexandre Dufour3

1/24/17

Remove border objects

Hi alexandre, I am sending you a short protocol and an image. When you run this protocol ROI ellipse

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Remove border objects

Hi alexandre, I am sending you a short protocol and an image. When you run this protocol ROI ellipse

1/24/17

Mike Kress, Stephane3

1/23/17

ROI blocks plugin

Hi Stéphane, Thanks Michel Le mercredi 18 janvier 2017 17:17:27 UTC+1, Mike Kress a écrit : Hi,

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ROI blocks plugin

Hi Stéphane, Thanks Michel Le mercredi 18 janvier 2017 17:17:27 UTC+1, Mike Kress a écrit : Hi,

1/23/17

1/18/17

Tracked spots ID

Hi I'm automating my analysis of two-photon T cell tracking, by creating spots from the ROIs of

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Tracked spots ID

Hi I'm automating my analysis of two-photon T cell tracking, by creating spots from the ROIs of

1/18/17

Mike Kress, Stephane4

1/15/17

Hi Stéphane, Thank you for your answer. It works. Michel Le jeudi 12 janvier 2017 11:36:43 UTC+1,

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Hi Stéphane, Thank you for your answer. It works. Michel Le jeudi 12 janvier 2017 11:36:43 UTC+1,

1/15/17

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