Re: Live fluorescence microscopy - Micro-Manager

[Jacqueline Ross]

Hi Maziar,

Rob has already detailed the options you have available to increase your signal for the camera.

If you don't have these options available in your control software, you could see if Micro-Manager can control your camera and provide binning for example. Binning of 2 would allow you to use a quarter of the exposure time although the resolution is of course reduced accordingly.

I had a look at the Micro-Manager device support page: http://valelab.ucsf.edu/~MM/MMwiki/index.php/Device_Support and there seem to be a few device adapters/controllers available for Canon cameras. Perhaps one of them will work for you.

Kind regards,

Jacqui
________________________________________
From: ImageJ Interest Group [[hidden email]] on behalf of Robert Baer [[hidden email]]
Sent: 07 November 2012 02:42
To: [hidden email]
Subject: Re: Live fluorescence microscopy

On 11/6/2012 7:04 AM, Maziar Shabestari wrote:

> Hi.
>
> Can anybody help me with live video acquisition from a Canon 5D Mark
> II? I would like to have live view of fluorescent bone sections which
> are obviously a very weak light source compared to what you have in
> conventional microscopy. The software package that came with the
> camera (EOS utilities) doesn't give me any customization options so in
> the live view mode I get only a black screen. I can take good pictures
> of the same section by having long exposure times though. Any
> suggestions what I can do?
>
> Thank you in advance.
>
> Regards,
>

This isn't really an ImageJ question, but your options are: 1) to using
binning and see if it helps; or 2)  increase exposure time during live
capture; or 3) increase the gain on the camera.

Of course, the cost of the first is loss of pixel resolution; the cost
of the second is lowering the upper limit of capture rate in fps; and 3)
the cost of the third is increasing noise because it will be amplified
with your signal.

HTH,

Rob

--
__________________
Robert W. Baer, Ph.D.
Professor of Physiology
Kirksille College of Osteopathic Medicine
A. T. Still University of Health Sciences
Kirksville, MO 63501 USA

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[Maziar Shabestari]

Rob and Jacqui, thank you both very much for your considerate replies. I
have already looked at Micro Manager, and spent hours trying to get it
to work with my camera. I was able to use a third party program/plugin
(DSLRRemotePro) suggested at MM's website to connect to the camera, but
seemingly it doesn't give me the option to alter binning, gain or
exposure time. Still I'm not able neither to transfer the video stream
to or control the camera with MM through DSLRRemotePro. I will probably
give it one more try before I completely give up though.

Thanks again.
Maziar


On 07.11.2012 09:18, Jacqui Ross wrote:

> Hi Maziar,
>
> Rob has already detailed the options you have available to increase your signal for the camera.
>
> If you don't have these options available in your control software, you could see if Micro-Manager can control your camera and provide binning for example. Binning of 2 would allow you to use a quarter of the exposure time although the resolution is of course reduced accordingly.
>
> I had a look at the Micro-Manager device support page:http://valelab.ucsf.edu/~MM/MMwiki/index.php/Device_Support  and there seem to be a few device adapters/controllers available for Canon cameras. Perhaps one of them will work for you.
>
> Kind regards,
>
> Jacqui
> ________________________________________
> From: ImageJ Interest Group [[hidden email]] on behalf of Robert Baer [[hidden email]]
> Sent: 07 November 2012 02:42
> To:[hidden email]
> Subject: Re: Live fluorescence microscopy
>
> On 11/6/2012 7:04 AM, Maziar Shabestari wrote:
>> Hi.
>>
>> Can anybody help me with live video acquisition from a Canon 5D Mark
>> II? I would like to have live view of fluorescent bone sections which
>> are obviously a very weak light source compared to what you have in
>> conventional microscopy. The software package that came with the
>> camera (EOS utilities) doesn't give me any customization options so in
>> the live view mode I get only a black screen. I can take good pictures
>> of the same section by having long exposure times though. Any
>> suggestions what I can do?
>>
>> Thank you in advance.
>>
>> Regards,
>>
> This isn't really an ImageJ question, but your options are: 1) to using
> binning and see if it helps; or 2)  increase exposure time during live
> capture; or 3) increase the gain on the camera.
>
> Of course, the cost of the first is loss of pixel resolution; the cost
> of the second is lowering the upper limit of capture rate in fps; and 3)
> the cost of the third is increasing noise because it will be amplified
> with your signal.
>
> HTH,
>
> Rob
>
> --
> __________________
> Robert W. Baer, Ph.D.
> Professor of Physiology
> Kirksille College of Osteopathic Medicine
> A. T. Still University of Health Sciences
> Kirksville, MO 63501 USA
>
> --
> ImageJ mailing list:http://imagej.nih.gov/ij/list.html
>
> --
> ImageJ mailing list:http://imagej.nih.gov/ij/list.html

--
Maziar Shabestari
DDS, PhD student

Department of Biomaterials
University of Oslo, Norway

Phone:    [phone]
Fax:    [phone]
Mobil:    ([phone]

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