I want to measure the area of a group of clumped cells with blurred margins. I cannot set a threshold and measure the ROIs as the edges are not clear. I have to manually select the ROIs. I would then like to color in the ROIs of same area with one color so that it is easy for visualization. I want to show that that in my tissue sample there are cells of different sizes.
Please suggest how I can fill the ROIs with the same area with a color. Is there a better way to do this?
Thanks
There's a macro called ROI Color Coder that colors measured ROIs according to size. That might be close to what you want.
The easiest way to add it to ImageJ is to use the Fiji distribution of ImageJ and activate the "BAR" update site. That way you get any updates automatically.
Check out the ImageJ forum too -- it's a good place to get answers about using ImageJ.
Hope this helps.
Related
We are developing an app where we need to crop an image according to the selecting object area. User will draw a line and we need to select the object and crop it .This crop need to be like the app: YourMoji
So far we have tried to get the color of the pixels along the line and then comparing those with the color of every pixel in the image and making a path from it to clip the image. But the almost going no where.
Is it possible through this way to crop an image or we are going in the wrong way? Can anyone provide a way to do this Or suggest a way to modify the way we have worked so far? Any advice and suggestions will be greatly appreciated!
Thanks in advance.
I guess what you want is the image segmentation algorithm called Graph Cut.
Here are two Github repositories, hope these would help:
GraphCut
GrabCutIOS
I'm not exactly clued up on image manipulation, but the first algorithm that comes to mind is something like this:
Take the average of the pixels in the line (as you have)
Since you appear to want faces, you might want to weight reds and blues over green. Not much green in faces of any skin tone.
For each pixel, if the colour is within a given threshold outside of your selected average, remove it / make transparent.
Perhaps the closer to the original line (or centroid), the less strict the threshold becomes.
I'd then provide the user with some tools for:
Sensitivity: how large the threshold is
Eraser: to remove parts of the image that your algorithm missed
Paintbrush: to replace parts of the image that your algorithm incorrectly removed.
How do I enhance the contrast/brightness of only my selected region and not the entire image. I am trying to use freehand selection tool, but unsure how to proceed afterwards.
Thanks in advance,
KL
If you click the Apply button of the Brightness & Contrast dialog, it will alter the pixel values of the selected region (and only the selected region) to match the current Brightness & Contrast settings. This will achieve your desired effect, if what you want is to visualize that region at a different B&C.
Beware of performing any image analysis after that point though, since the raw pixel values will differ and you will then be comparing apples to oranges.
If you change the image type to RGB and then it will only change the contrast/brightness of the selection. (After changing the contrast you can change it back to 16bit)
I have been working with OpenGL in iOS, and setting the colors with glColor4f(r,g,b,a) and then drawing my own color on a white UIImageView. I basically have a brush, which is then moved around my user's touch, and then it paints the color onto the canvas. But this color needs to be water paint (like smudged color)
Does anyone understand/knows how to get a water color like this app does, and how the background UIImageView has a texture on it?
https://itunes.apple.com/us/app/hello-watercolor/id539414526?mt=8
or checkout water paint in this. http://www.fiftythree.com/paper
I created a bounty on this as I am really having a hard time to grasp how to derive such smooth flowing colors out of the normal colors. Even if you guys point me in the right direction, or to some sample code on how I can get the effect of water-paint, it would be really helpful ^_^
And as a bonus, it would be also be helpful if you can point out to me how to get canvas on which it is painted on looks realistic, and blended with the paint? Does Blending/GLSL have to do with any of this?
Is there any sample project on this?
If you are still struggling with the basics of getting realistic looking water colors working, you may want to experiment/prototype in photoshop first.
http://www.zoepiel.com/tutorials/watercolor/ shows some very effective tricks for creating watercolor images with simple tools.
The most interesting one is to multiply a group of watercolor layers with a greyscale watercolor paper image. The texture of the paper makes some parts remain white, and other parts saturate with color, just like real watercolor.
Each layer remains 'wet' in the sense that the colors within it blend, but the layers are 'dry' with respect to each other.
She also explains some of her brush and blur settings and shows what they do.
Once you can produce the desired effect in photoshop, you'll have clear specifications of what you want to do and you'll be quite a bit closer to programming it out.
Looking at the examples you posted, it looks like they are using a simple Gaussian Blur with a radius of double your brush size. This may be an incomplete solution, but it's at least the first level.
I have been working with OpenGL in iOS, and setting the colors with glColor4f(r,g,b,a) and then drawing my own color on a white UIImageView. I basically have a brush, which is then moved around my user's touch, and then it paints the color onto the canvas. But this color needs to be water paint (like smudged color)
Does anyone understand/knows how to get a water color like this app does, and how the background UIImageView has a texture on it?
https://itunes.apple.com/us/app/hello-watercolor/id539414526?mt=8
or checkout water paint in this. http://www.fiftythree.com/paper
I created a bounty on this as I am really having a hard time to grasp how to derive such smooth flowing colors out of the normal colors. Even if you guys point me in the right direction, or to some sample code on how I can get the effect of water-paint, it would be really helpful ^_^
And as a bonus, it would be also be helpful if you can point out to me how to get canvas on which it is painted on looks realistic, and blended with the paint? Does Blending/GLSL have to do with any of this?
Is there any sample project on this?
If you are still struggling with the basics of getting realistic looking water colors working, you may want to experiment/prototype in photoshop first.
http://www.zoepiel.com/tutorials/watercolor/ shows some very effective tricks for creating watercolor images with simple tools.
The most interesting one is to multiply a group of watercolor layers with a greyscale watercolor paper image. The texture of the paper makes some parts remain white, and other parts saturate with color, just like real watercolor.
Each layer remains 'wet' in the sense that the colors within it blend, but the layers are 'dry' with respect to each other.
She also explains some of her brush and blur settings and shows what they do.
Once you can produce the desired effect in photoshop, you'll have clear specifications of what you want to do and you'll be quite a bit closer to programming it out.
Looking at the examples you posted, it looks like they are using a simple Gaussian Blur with a radius of double your brush size. This may be an incomplete solution, but it's at least the first level.
please help me to segment a image in binary image...
more clearly,
i got a image from background subtraction, which is binary...means, the object area is of white color and non object object is black..now problem is how to label that white area?
i m using c#.net.
If by "label the white area" you just mean create a bucket with a label (e.g., "TheObject") and add all the connected white pixels to it, then the most straightforward way is the so-called "sequential algorithm".
The two-pass algorithm described here is also easy to implement.
using python, you will find the tools you need at:
http://luispedro.org/software/mahotas
under java use ImageJ with Landini's morphological plugins