color segmentation by area

[Paulo Salinas]

Dear all,

I am doing simple morphometric analysis on muscle tissue (HE stained).
However, I try to make a color segmentation on the tissue according to the
area of the muscle fibers.
The goal is for the colors to symbolize area ranges of muscle fiber groups.
Can you help me with a plugin or paper?

I attach an example that illustrates the segmentation of colors according
to the area, but in the peripheral nerve (IHC)

All opinion welcome,

Best regards

Paulo


Paulo Salinas
Institute of Biology
Pontificia Universidad Católica de Valparaíso
Av.Universidad#330, Curauma, Valparaíso
CHILE
Fono: [phone]
[hidden email]
www.morpholab.cl

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[Paulo Salinas]

Thanks!

Attached 10X image file (includes metric bar)

Paulo







Paulo Salinas
Institute of Biología
Pontificia Universidad Católica de Valparaíso
Av.Universidad#330, Curauma, Valparaíso
CHILE
Fono: [phone]
[hidden email]
www.morpholab.cl





El dom, 13 jun 2021 a las 17:19, Jacqueline Ross (<
[hidden email]>) escribió:

> Dear Paulo,
>
> It might help if you post one of your H&E images, preferably the one that
> matches the segmentation image you already posted.
>
> Kind regards,
>
> Jacqui
> ------------------------------
> *From:* ImageJ Interest Group <[hidden email]> on behalf of Paulo
> Salinas <[hidden email]>
> *Sent:* Monday, 14 June 2021 7:20 AM
> *To:* [hidden email] <[hidden email]>
> *Subject:* color segmentation by area
>
> Dear all,
>
> I am doing simple morphometric analysis on muscle tissue (HE stained).
> However, I try to make a color segmentation on the tissue according to the
> area of the muscle fibers.
> The goal is for the colors to symbolize area ranges of muscle fiber groups.
> Can you help me with a plugin or paper?
>
> I attach an example that illustrates the segmentation of colors according
> to the area, but in the peripheral nerve (IHC)
>
> All opinion welcome,
>
> Best regards
>
> Paulo
>
>
> Paulo Salinas
> Institute of Biology
> Pontificia Universidad Católica de Valparaíso
> Av.Universidad#330, Curauma, Valparaíso
> CHILE
> Fono: [phone]
> [hidden email]
> www.morpholab.cl
>
> --
> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>

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ImageJ mailing list: http://imagej.nih.gov/ij/list.html

[Krs5]

Dear Paulo,

Not sure if the following plugins do what you want but have a look:

https://imagejdocu.tudor.lu/macro/roi_color_coder
https://imagej.nih.gov/ij/plugins/fraclac/FLHelp/Colour_Selection_Tree.htm
https://imagej.net/plugins/morpholibj#Measurements

Best wishes

Kees


-----Original Message-----
From: Paulo Salinas
Sent: 13 June 2021 22:28
Subject: Re: color segmentation by area

Thanks!

Attached 10X image file (includes metric bar)

Paulo







Paulo Salinas
Institute of Biología
Pontificia Universidad Católica de Valparaíso Av.Universidad#330, Curauma, Valparaíso CHILE
Fono: [phone]
[hidden email]
https://eur03.safelinks.protection.outlook.com/?url=http%3A%2F%2Fwww.morpholab.cl%2F&amp;data=04%7C01%7Ckrs5%40leicester.ac.uk%7C02759757063c4db299e308d92eb2a8c9%7Caebecd6a31d44b0195ce8274afe853d9%7C0%7C0%7C637592167158744222%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C1000&amp;sdata=GBnmqRT2rpGgoe1wEhMIusdW%2By%2B5SHfjVMMpi5movy4%3D&amp;reserved=0





El dom, 13 jun 2021 a las 17:19, Jacqueline Ross (<
[hidden email]>) escribió:

> Dear Paulo,
>
> It might help if you post one of your H&E images, preferably the one
> that matches the segmentation image you already posted.
>
> Kind regards,
>
> Jacqui
> ------------------------------
> *From:* ImageJ Interest Group <[hidden email]> on behalf of Paulo
> Salinas <[hidden email]>
> *Sent:* Monday, 14 June 2021 7:20 AM
> *To:* [hidden email] <[hidden email]>
> *Subject:* color segmentation by area
>
> Dear all,
>
> I am doing simple morphometric analysis on muscle tissue (HE stained).
> However, I try to make a color segmentation on the tissue according to
> the area of the muscle fibers.
> The goal is for the colors to symbolize area ranges of muscle fiber groups.
> Can you help me with a plugin or paper?
>
> I attach an example that illustrates the segmentation of colors
> according to the area, but in the peripheral nerve (IHC)
>
> All opinion welcome,
>
> Best regards
>
> Paulo
>
>
> Paulo Salinas
> Institute of Biology
> Pontificia Universidad Católica de Valparaíso Av.Universidad#330,
> Curauma, Valparaíso CHILE
> Fono: [phone]
> [hidden email]
> https://eur03.safelinks.protection.outlook.com/?url=http%3A%2F%2Fwww.m
> orpholab.cl%2F&amp;data=04%7C01%7Ckrs5%40leicester.ac.uk%7C02759757063
> c4db299e308d92eb2a8c9%7Caebecd6a31d44b0195ce8274afe853d9%7C0%7C0%7C637
> 592167158744222%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2
> luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C1000&amp;sdata=GBnmqRT2rpGgoe1w
> EhMIusdW%2By%2B5SHfjVMMpi5movy4%3D&amp;reserved=0
>
> --
> ImageJ mailing list:
> https://eur03.safelinks.protection.outlook.com/?url=http%3A%2F%2Fimage
> j.nih.gov%2Fij%2Flist.html&amp;data=04%7C01%7Ckrs5%40leicester.ac.uk%7
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