http://imagej.273.s1.nabble.com/Practical-Imaging-Guides-Tutorials-tp3688648p3688652.html
> Are there any detailed yet practical imaging guides or tutorials?
> Overall, what are some of the best resources for an 3D imaging? I am
> aware of the resources on
http://rsbweb.nih.gov/ij/docs/index.html>
> *Issue:
> In general, It seems that imaging information is either too
> basic/vague, or too mathematical/abstract. Thus, making it difficult
> to achieve usable data for the average user, especially for 3D
> biological image sets.
> When multiple functions or algorithms are available, how does one
> know which to use? What is the best place to find the
> advantages/disadvantages of similar functions or procedures?
>
> *Basic Imaging Steps:
> In general, these are the basic imaging steps as I understand it.
> Please correct me if I'm wrong.
>
> 1) Normalization: normalize image intensity
> 2) Filtering: filter image by removing background noise
> What function should be used?
> 3) Selection: select the region of interest using thresholding or
> manual selection to create a binary image or ROI selection
> How is this correctly achieved for 3D z-stacked images? How does one
> fix the selected 'islands'? ...watershedding? What if the entire
> region of interest can't be selected, that is thresholding misses
> some regions?
> 3) Calibration: calibrate image using scale bar or other methods.
> 5) Quantification: calculate the desired parameter
>
> *Data Type:
> I'm currently working with z-stack confocal microscopy data of
> neurons.
>
>
> I'm sure the above questions are broad, but any direction to help me
> further learn proper biological imaging techniques would be very
> appreciated.
>
> -Kalen
Joel B. Sheffield, Ph.D.