Question: Is there a visualization tool out there to help me browse images taken from a 96 well plate
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gravatar for wichaidi
3.9 years ago by
wichaidi0
United States
wichaidi0 wrote:

Hi there -

Does anyone know if there is any open source/free tool that I can quickly browse image data taken from GE INCell 6000. The scope is located at the imaging core, and I am hoping that there is some tool out there that can help me quickly browse through the data when I am back to the lab - before start performing any analysis. The scope comes with the software that can browse all the images. However, I am wondering if there's something that I can browse on my desktop.  

Thank you!

Pearl

ADD COMMENTlink modified 3.9 years ago by Alex Reynolds29k • written 3.9 years ago by wichaidi0
1
gravatar for Alex Reynolds
3.9 years ago by
Alex Reynolds29k
Seattle, WA USA
Alex Reynolds29k wrote:

Perhaps use a remote desktop tool to connect to the scope controller, so that you can run the software remotely and view it locally.

It looks like the scope controller runs Windows 7, so you could enable its Remote Desktop service if it is connected to a network, and if you have privileges to do so.

Once enabled, to view a Windows machine from a Mac, you could use Remote Desktop for Mac. To view Windows from Windows, Remote Desktop Connection. To view Windows from Linux, you could perhaps use rdesktop or another client.

If you have some other combination of OSes, you could perhaps use a web-based product like LogMeIn.

ADD COMMENTlink modified 3.9 years ago • written 3.9 years ago by Alex Reynolds29k

Provided the scope computer is remotely accessible/on the network.

@wichaidi: I don't know what kind of images/format you are looking at but if you need a program that can handle odd bit depth images then look into Irfanview (PC).

ADD REPLYlink written 3.9 years ago by genomax72k

It's either 12/16 bit gray-scale images. It would be great if the tool can make RGB as well. I'm not sure if you're familiar with JCB - (journal of cell biology). They have DataViewer for the reader to visualize the published data. I am looking for something similar to that (http://jcb-dataviewer.rupress.org/jcb/browse/4609/S3/) Thank you though

ADD REPLYlink written 3.9 years ago by wichaidi0

Thank you for your response Alex. I'm not sure whether the imaging core would be okay for us to do so. Software/scope is being used most of the time. 

ADD REPLYlink written 3.9 years ago by wichaidi0

ImageJ is a free, open-source Java-based image viewer written by a team at NIH. I don't know if it has browsing features, like a gallery mode or anything like that, but it opens lots of formats and has plug-ins to extend that capability further.

ADD REPLYlink written 3.9 years ago by Alex Reynolds29k
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