Area occupied and direction from a fluorescent image

convexhull
fluorescence
analyze-particles
measure
fiji
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#1

How could you measure the total area occupied in a fluorescent nucleus image.
Nucleus FL.zip (60.2 KB)

To measure the direction with respect to a specific angle.
the cell are migrating on a fiber (vertical 90 degrees). How can i determine the angle of cell migration with respect to a vertical 90degrees line.

Thanks
S


#2

@iwanaknow

Would you be able to post an original, raw image file?

For calculating the area … you can simply follow simple Segmentation techniques. Here is a helpful Segmentation workshop (and corresponding slides) that you might find helpful.

For the angle … you can select the measures you calculate in Set Measurements - using Fit Ellipse:

“Fits an ellipse to the selection. Uses the headings Major, Minor and Angle. Major and Minor are the primary and secondary axis of the best fitting ellipse. Angle is the angle between the primary axis and a line parallel to the X-axis of the image. The coordinates of the center of the ellipse are displayed as X and Y if Centroid is checked…”

and then use that angle relative to your vertical line. You might need to do a bit of scripting to get exactly the measure you want - so here are some links to get you started with that:

eta


#3

Hi etarena
thanks for the info you provided. I will have a go at it :slight_smile:
I attached the RAW image below (zip file).wb6-col-1.5x_w0002.tif.zip (239.6 KB)


#4

Dear @iwanaknow,
could you please draw a line in the images you’ve uploaded to understand better what it will be the migration direction in your example?


#5

Hi @emartini,

I have attached a zip file containing:

  1. Original image
  2. Original image + line indicating the direction of migration
  3. I also included a brightfield image with t=0, and t= 48hrs. To show what the surface looks like, and how the migration progressed.

example.zip (3.2 MB)

thanks
S