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Measuring white space
I have several micrographs that I need to measure white space in the field and compare between the different groups. Any suggestions?
Thanks
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Yuri
I do not know what your MICROGRAPH IMAGES look like so I've done a bit of PROTOTYPING using one of my favorite examples, CHOCOLATE CHIP COOKIES.
In the screen capture below:
A = ORIGINAL IMAGE
B = MONO version of A
C = INVERSE of B
D = ENHANCED version of C with 9 OBJECTS (using MANUAL THRESHOLD + MANUAL SPLITTING and MANUAL DELETES)
E = ROIS created from OBJECTS in C (using FEATURE MANAGER) on PIXELS from C
F = E + OBJECTS from DOUBLE MANUAL THRESHOLD inside ROIS seen in E
The two MEASUREMENT TABLES (that are PHOTOSHOPPED to appear simultaneously) are for IMAGES D (LEFT) and F (RIGHT).
The 9 ROIS from D (and E F) can be handled individually if that suits the needs of your work better.
I hope this information is helpful but if you can supply an example image, I can probably do a better job of assisting you.
Good luck.
-- Matt
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This is an H&E stain, and I need to do a quantitative analysis of the white space between the cells
-- Matt
Beth
I received the EXAMPLE IMAGE that you sent.
Please see the SCREEN CAPTURE below that illustrates one of the ways that you could move from your ORIGINAL IMAGE through to a measure of the WHITE SPACE in the TISSUE.
In the SCREEN CAPTURE please see:
ORIGINAL IMAGE = 838 2 20x.tif calibrated according to CALIBRATION BAR (0.3755 um/pix)
A = CROP of ORIGINAL IMAGE to avoid issues with CALIBRATION BAR and EDGES
B = MASK of DARK OBJECTS (set automatically) in A
C = CROP of ORIGINAL IMAGE to avoid issues with CALIBRATION BAR and EDGES
D = MASK of BRIGHT OBJECTS (set manually) in C
MEASUREMENT TABLES for B (TISSUE) and C (WHITE SPACE)*
EXCEL TABLE with B and C DATA and calculation of TOTAL C AREA / TOTAL B AREA
There are other ways to tackle this challenge but hopefully this will illustrate one that generate the results you need.
The process illustrated above could be automated with a PREMIER MACRO PROJECT.
I hope this information is helpful.
-- Matt
* MEASUREMENT TABLES for each image are shown individually by PREMIER. Both appear simultaneously in this SCREEN CAPTURE thanks to PHOTOSHOP.
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amehta17 --
I believe I understand your challenge.
I believe that you would like to measure the BLUE STAINED AREA within the ROI.
Your image was difficult to work on because the YELLOW ANNOTATION / ROI was confounding things. I found a similar image on the INTERNET and then worked through a process that I believe will provide the information you need.
Please see the SCREEN CAPTURE below that illustrates moving from:
A = ORIGINAL IMAGE
B = ORIGINAL IMAGE with CONCENTRIC ROIS
C = CROP of B
C MASK = SMART THRESHOLD MASK of C
D = CROP of B
D MASK = BRIGHT THRESHOLD MASK of D
C MASK and D MASK can be measured to generate BLUE STAINED AREA and ROI AREA.
You can also get ROI AREA by measuring AREA and PERCENT AREA in C MASK and then back figuring the ROI AREA.
I hope this information helps.
-- Matt
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Thanks again
A