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Jena (GA) 2-day

Posted by: jan.brocher@biovoxxel | on March 24, 2015

* I am (your position)

Undergraduate student PhD student PostDoc Facility Manager Reserach group leader (PD, Prof.) Technician

* I will use the following computer system during the course:

Windows (PC) MAC (OSX) Linux (might not be fully functional)

* I am doing imaging experiments…

* So far, I was using some of the following programs to process/analyze my images

I did not analyze images so far Fiji ImageJ Adobe Photoshop Gimp BioimageXD / ICY CellProfiler Matlab Imaris / Volocity other

* I am doing research in the following areas: shortly describe if you are working with a specific imaging devices and which kind of samples (cells, animal, human patients,…) and shortly mention imaging related methods you are working with (e.g. confocal, brightfield, IF, ICC, IHC, tracking, co-localization,………)

* I am interested in topics regarding the following specific image processing or analysis (multiple selection possible). Due to time reasons we need to restrict to the topics interesting for the majority of the participants.

Basic adjustments (contrast, image rotation and size adjustments, background correction) Automated counting and 2D measurements (area, length, shape,…) Basic 3D-reconstruction and working with image stacks Correct intensity quantification of fluorescent images Analysis of histological sections and stainings (separating colors and measuring positively stained areas) Densiometry (e.g. semi-quantitative analysis of Western blots) First steps in ImageJ/Fiji macro recording for individual processing and analysis automation Do’s and Dont’s of publication figure preparation No specific analysis interest / want to get an overview I have a specific processing/analysis question and will send an e-mail with an example image and a short explanation

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