Dataset for analyzing spatial distribution of Y-junctions in flat-mounted retinae

The flat mounted retinae included are the following:

R4 has 285 (hand-identified) Y-Junctions; R4 is fish #8 (of flat-mounted, row-traced retinae)
L1 has 275 (hand-identified) Y-Junctions; L1 is fish #4 (of flat-mounted, row-traced retinae)
7R has 166 (hand-identified) Y-Junctions; 7R is fish #2 (of flat-mounted, row-traced retinae)
5L has 155 (hand-identified) Y-Junctions; 5L is fish #1 (of flat-mounted, row-traced retinae)
L11 has 184 (hand-identified) Y-Junctions; L11 is fish #6 (of flat-mounted, row-traced retinae)
9R has 221 (hand-identified) Y-Junctions; 9R is fish #3 (of flat-mounted, row-traced retinae)
L2 has 249 (hand-identified) Y-Junctions; L2 is fish #5 (of flat-mounted, row-traced retinae)
R3 has 182 (hand-identified) Y-Junctions; R3 is fish #7 (of flat-mounted, row-traced retinae)

Pixel size for all of the above images is 0.2227074 µm  X  0.2227074 µm

To analyze the retina,
I recommend:
1.	Copying “…_onlylines copy.tif” into a folder called “just_lines”
2.	Copying “….tif” (for example, 7R.tif and L2.tif) into a folder called “just_dots”
3.	Copying “_full_image.tif” into a folder called “full_images”
4.	Copying “….m” files into a folder called “code”

The “just_lines” folder contains images with lines along traced rows (no other signal)

The “just_dots” folder contains images with dots at every Y-Junction (no other signal)

The “full_images” folder contains images with UV cone signal and ZO (zonula occludens) 
staining. They have distinct layers, so these images are easily editable within photoshop.

find_all_defects_in_grain_boundaries_edited.m is the main function for counting which 
Y-Junctions are in grain boundaries. Please make sure that the “just_lines” and 
“just_dots” are within the MATLAB path (so that the relevant images may be analyzed).

To Cite this Work:
Nunley, H., Nagashima, M., Martin, K., Lorenzo Gonzalez, A., Suzuki, S., Norton, D., 
Wong, R., Raymond, P., Lubensky, D. Dataset for analyzing spatial distribution of 
Y-junctions in flat-mounted retinae [Data set]. University of Michigan - Deep Blue. 
https://doi.org/10.7302/jgb4-6h13