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Circularity

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Julian Thorpe

Circularity

Dear All,
I am a very new user of ImageJ and want to analyse nuclei within TEM
images, as my experimental cells visually have more invaginations in the
nuclear envelope than the 'controls'. I thought that the 'circularity'
option would be the best way to go, but it does not appear in the
'Analyse'/'Set Measurements' window, despite the ImageJ site saying
"Circularity calculations are built into ImageJ 1.29 and later...." at
<http://rsbweb.nih.gov/ij/plugins/circularity.html>
Can anyone please help with this, or indeed suggest another approach I
could use?
Many thanks in advance,
Jules

Dr. Julian R. Thorpe
(Office 2C9/Lab 2C11-13)
Electron Microscope Division,
The Sussex Centre for Advanced Microscopy,
John Maynard-Smith Building,
School of Life Sciences,
University of Sussex,
Falmer,
Brighton BN1 9QG
Tel.: ext +44 (0)1273 877585
int 7585

URLs:
(home)
http://www.sussex.ac.uk/biology/profile2686.html
(lab)
http://www.lifesci.susx.ac.uk/Home/Julian_Thorpe/cover.htm
(research)
http://www.lifesci.susx.ac.uk/Home/Julian_Thorpe/ad_cover.htm

Gabriel Lapointe-2

Re: Circularity

Hi Jules,
The parameter you are looking for in Analyse>Set_Measurments... is
Shape_descriptors.

Cheers
Gabriel Lapointe, MSc.
Laboratoire de Luc DesGroseillers, PhD.
Pavillon Roger-Gaudry Local A-538
Département de biochimie
Faculté de Médecine de l'Université de Montréal
2900 boul. Édouard-Montpetit,
Montréal, Qc, H3T 1J4
Tel : (514) 343-6111 postes 5187, 5152, 5162 ou 1048
Fax : (514) 343-2210
[hidden email]
http://gabriellapointe.ca

On Thu, 2010-10-21 at 14:24 +0100, Julian Thorpe wrote:

> Dear All,
> I am a very new user of ImageJ and want to analyse nuclei within TEM
> images, as my experimental cells visually have more invaginations in the
> nuclear envelope than the 'controls'. I thought that the 'circularity'
> option would be the best way to go, but it does not appear in the
> 'Analyse'/'Set Measurements' window, despite the ImageJ site saying
> "Circularity calculations are built into ImageJ 1.29 and later...." at
> <http://rsbweb.nih.gov/ij/plugins/circularity.html>
> Can anyone please help with this, or indeed suggest another approach I
> could use?
> Many thanks in advance,
> Jules
>
> Dr. Julian R. Thorpe
> (Office 2C9/Lab 2C11-13)
> Electron Microscope Division,
> The Sussex Centre for Advanced Microscopy,
> John Maynard-Smith Building,
> School of Life Sciences,
> University of Sussex,
> Falmer,
> Brighton BN1 9QG
> Tel.: ext +44 (0)1273 877585
> int 7585
>
> URLs:
> (home)
> http://www.sussex.ac.uk/biology/profile2686.html
> (lab)
> http://www.lifesci.susx.ac.uk/Home/Julian_Thorpe/cover.htm
> (research)
> http://www.lifesci.susx.ac.uk/Home/Julian_Thorpe/ad_cover.htm

Julian Thorpe

Re: Circularity

Hi Gabrielle,
Thanks a lot. I've just had a go and now I can get my data I think!
Thanks a lot,
Jules

--On 21 October 2010 10:38 -0400 Gabriel Lapointe
<[hidden email]> wrote:

> Hi Jules,
> The parameter you are looking for in Analyse>Set_Measurments... is
> Shape_descriptors.
>
> Cheers
> Gabriel Lapointe, MSc.
> Laboratoire de Luc DesGroseillers, PhD.
> Pavillon Roger-Gaudry Local A-538
> Département de biochimie
> Faculté de Médecine de l'Université de Montréal
> 2900 boul. Édouard-Montpetit,
> Montréal, Qc, H3T 1J4
> Tel : (514) 343-6111 postes 5187, 5152, 5162 ou 1048
> Fax : (514) 343-2210
> [hidden email]
> http://gabriellapointe.ca
>
> On Thu, 2010-10-21 at 14:24 +0100, Julian Thorpe wrote:
>
>> Dear All,
>> I am a very new user of ImageJ and want to analyse nuclei within TEM
>> images, as my experimental cells visually have more invaginations in the
>> nuclear envelope than the 'controls'. I thought that the 'circularity'
>> option would be the best way to go, but it does not appear in the
>> 'Analyse'/'Set Measurements' window, despite the ImageJ site saying
>> "Circularity calculations are built into ImageJ 1.29 and later...." at
>> <http://rsbweb.nih.gov/ij/plugins/circularity.html>
>> Can anyone please help with this, or indeed suggest another approach I
>> could use?
>> Many thanks in advance,
>> Jules
>>
>> Dr. Julian R. Thorpe
>> (Office 2C9/Lab 2C11-13)
>> Electron Microscope Division,
>> The Sussex Centre for Advanced Microscopy,
>> John Maynard-Smith Building,
>> School of Life Sciences,
>> University of Sussex,
>> Falmer,
>> Brighton BN1 9QG
>> Tel.: ext +44 (0)1273 877585
>> int 7585
>>
>> URLs:
>> (home)
>> http://www.sussex.ac.uk/biology/profile2686.html
>> (lab)
>> http://www.lifesci.susx.ac.uk/Home/Julian_Thorpe/cover.htm
>> (research)
>> http://www.lifesci.susx.ac.uk/Home/Julian_Thorpe/ad_cover.htm

Rick Simmons

Please remove me

Please remove my email address from this distribution list. Thank you for your assistance. I may rejoin via a new email address at some time in the future.

Thanks again,
Rick Simmons

-----Original Message-----
From: ImageJ Interest Group [mailto:[hidden email]] On Behalf Of Julian Thorpe
Sent: Thursday, October 21, 2010 9:48 AM
To: [hidden email]
Subject: Re: Circularity

Hi Gabrielle,
Thanks a lot. I've just had a go and now I can get my data I think!
Thanks a lot,
Jules

--On 21 October 2010 10:38 -0400 Gabriel Lapointe
<[hidden email]> wrote:

Dr. Julian R. Thorpe
(Office 2C9/Lab 2C11-13)
Electron Microscope Division,
The Sussex Centre for Advanced Microscopy,
John Maynard-Smith Building,
School of Life Sciences,
University of Sussex,
Falmer,
Brighton BN1 9QG
Tel.: ext +44 (0)1273 877585
int 7585

URLs:
(home)
http://www.sussex.ac.uk/biology/profile2686.html
(lab)
http://www.lifesci.susx.ac.uk/Home/Julian_Thorpe/cover.htm
(research)
http://www.lifesci.susx.ac.uk/Home/Julian_Thorpe/ad_cover.htm
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