Thank you so much! I wasn't aware of the montage capability. I had been stitching together images using photoshop. Talk about tedious! More tutorials, please!
Thank you for the response. I figured it out though by installing the "drag & drop installation" function, then installing your plug-in by simply using this feature. Maybe useful for others who have problems with installation on their Mac.
Awesome video, but I had a question. How would I go about analyzing the "brightness" values that you described along a specific line? I was hoping to be able to designate a given line on an image and then be able to generate a chart which would have the brightness on the y axis so that I could see trends along specific lines... Is there a way of doing this all from within ImageJ?
Hi. The easiest way to get imageJ on the mac would be to download ImageJ from the main site and then also download the plugins only bundle from the MBF imageJ website (MBF ImageJ > Installations) from the menu. You then find your imageJ folder on your hard drive and replace all of these folders with the macro and plugin folders you just downloaded from MBF. Another option is to download Fiji ImageJ which is already full of useful plugins and downloads as a single package on a Mac. Good luck.
Hello, thanks for the video. I was trying to download the MBF ImageJ for 64 bit -widows 10 via the site that you mention, but it seems that I have to create an account to oracle in order to do so. Is it any other way?
Thank you for the video. I need to perform cephalometric analysis on a bunch of facial x-rays for which I have to mark two independent lines and check the angle between them.Can you help me in this regard? Thanks in advance!
The Merge/split shortcut can be reached just by going to 'Image'-->'Color' . The menu you reach there has all of the same functions. The only thing missing is the pretty pie graph :(
Hi, ImageJ is a java programme, so doesn't actually have to be installed on a computer, it could even run off a USB stick. It sounds to me as if the programme didn't install properly on your computer. Try uninstalling it and then download either the MBF imageJ bundle or even the Fiji ImageJ bundle. Once installed you should be able to increase the amount of memory ImageJ can use by going to through Edit >Options >Memory and Threads and then increase the memory to whatever you can. Good luck
I can only run your folder if I go directly to the plugins folder and double click on the ij.jar icon. Then it opens Image J, but it only has 128MB of working memory and cannot be adjusted. This is not enough to do anything meaningful with an image besides open 1 file to look at. Is this how it's supposed to run?
Hi I hope you can help me. I am analysing Retinal Fundus Photographs which I have taken in high resolution images. I am using NeuronJ plugin to trace the retinal vessels and get a binary image of those traces. However, in NeuronJ it does not allow me to open the images unless it is an 8-Bit image. But when i convert my images into 8-Bit image, it loses a lot of the detail. How could I open my image without it being converted into an 8Bit image where it loses a lot of detail. I hope you can help. Thank you
Excellent! I'm hoping to use imageJ to simulate a virtual learning environment for plant science students. hopefully this will work, I may have questions in due course!
Hello I downloaded (fiji is just) ImageJ, i am trying to cut parts from my 3d viewer but as soon as I select "freehand selection" (or any else selection type) my fiji software crashes and quits on its own (btw i have installed it on my Ubuntu 16.04). Can you please advice me what should i do to resolve this problem. Thanks in advance :)
Hey! Is it possible to detect colored particles and fibers with this program? I mean not just counting the pixels which are colored but to count particles. Thanks in advance :-)
HOW WE CAN CALCULATE PERCENTAGE OF CELL POSITIVE FOR EGFR IN IMMUNOHISTOCHEMTRY STAINED IMAGE . I ALSO NEED TO CALCULATE TOTAL NUMBER OF CELL PRESENT IN THE IMAGE? CAN SOMEONE HELP?
Hello, I watched your video because I'm planning to use ImageJ as a tool for the analysis of data and results of my master's thesis. I would just like to ask some simple questions that I have about using ImageJ: 1) Is there a functionality or option in ImageJ that allows the user to count the number of pixels of a particular color and/or get its percentage from the total number of pixels? For example, I have an image with color A and B, I want to get the percentage of the total number of pixels of color A, or color B. (For simplicity, we can let color A = black, and color B = white) 2) For getting the percentage of total number of pixels, which ImageJ would you recommend for me to download and use, the basic ImageJ that you first showed in the video or the MBF ImageJ which you used in the video? I would really appreciate if you could respond to my queries, it will be a great help. Thanks in advance.
Hi, MBF have shut off their webpage, but the even better news is that all of the plugins are still available as a single zip file. Just go to the plugins> collections (imagej.nih.gov/ij/plugins/index.html#collections) and you can get the lot into the latest version of ImageJ or Fiji. There are also instruction of how to install it. Hope that helps.
Good video, I have one question, I have problems with open a image in format TIFF, the software say me that ImageJ can only open 8 and 16 bits/channel images (12), my pictures are 24 bits but I read the manual I undestand that ImageJ can open to 32 bits pictures, Can somebody help me please? Excuse me for bad english
Thank You for your tutorial. The download of ImageJ microscopy is not available in the site. It will very helpful if you will provide me link to download this file. Thank You. Waiting eagerly for your kind reply.
![I.N "HALLUCINATION" | [Stray Kids : SKZ-PLAYER]](http://i.ytimg.com/vi/n5B5q1Hwt_U/mqdefault.jpg)
Much appreciated. I'm also new to image processing and I'm a bit overwhelmed. Thanks for the overview and the good description of grey scale.
Thank you so much! I wasn't aware of the montage capability. I had been stitching together images using photoshop. Talk about tedious! More tutorials, please!
Thank you for the response. I figured it out though by installing the "drag & drop installation" function, then installing your plug-in by simply using this feature.
Maybe useful for others who have problems with installation on their Mac.
Awesome video, but I had a question. How would I go about analyzing the "brightness" values that you described along a specific line? I was hoping to be able to designate a given line on an image and then be able to generate a chart which would have the brightness on the y axis so that I could see trends along specific lines... Is there a way of doing this all from within ImageJ?
The MBF website is down, MBF plugins can be downloaded on the ImageJ website : imagej.nih.gov/ij/plugins/mbf/index.html
How can I install all the plug ins in the link all at once?
Hi! Thank you a lot for this video. I'm a mining engineer and I have plans to work with Image analysis in my PhD.
Hi.
The easiest way to get imageJ on the mac would be to download ImageJ from the main site and then also download the plugins only bundle from the MBF imageJ website (MBF ImageJ > Installations) from the menu. You then find your imageJ folder on your hard drive and replace all of these folders with the macro and plugin folders you just downloaded from MBF. Another option is to download Fiji ImageJ which is already full of useful plugins and downloads as a single package on a Mac.
Good luck.
Thank you for this tutorial.. I am a beginner with ImageJ, this is helping me a lot..
Excellent teaching style.
Hello, thanks for the video. I was trying to download the MBF ImageJ for 64 bit -widows 10 via the site that you mention, but it seems that I have to create an account to oracle in order to do so. Is it any other way?
Thank you for the video. I need to perform cephalometric analysis on a bunch of facial x-rays for which I have to mark two independent lines and check the angle between them.Can you help me in this regard? Thanks in advance!
Fiji also can be used, which is based on ImageJ and include a lot of plugins in an ordered way.
fiji.sc/Fiji
I need to count overlapping circles using image J. Could you elaborate the procedure?
The Merge/split shortcut can be reached just by going to 'Image'-->'Color' . The menu you reach there has all of the same functions. The only thing missing is the pretty pie graph :(
Hi,
ImageJ is a java programme, so doesn't actually have to be installed on a computer, it could even run off a USB stick. It sounds to me as if the programme didn't install properly on your computer. Try uninstalling it and then download either the MBF imageJ bundle or even the Fiji ImageJ bundle. Once installed you should be able to increase the amount of memory ImageJ can use by going to through Edit >Options >Memory and Threads and then increase the memory to whatever you can.
Good luck
Very helpful, Thanks.
Where may I find the tools you were using, for example, the merge/split color tool or the histogram tools?
I can only run your folder if I go directly to the plugins folder and double click on the ij.jar icon. Then it opens Image J, but it only has 128MB of working memory and cannot be adjusted. This is not enough to do anything meaningful with an image besides open 1 file to look at. Is this how it's supposed to run?
Hi I hope you can help me. I am analysing Retinal Fundus Photographs which I have taken in high resolution images. I am using NeuronJ plugin to trace the retinal vessels and get a binary image of those traces. However, in NeuronJ it does not allow me to open the images unless it is an 8-Bit image. But when i convert my images into 8-Bit image, it loses a lot of the detail. How could I open my image without it being converted into an 8Bit image where it loses a lot of detail. I hope you can help. Thank you
Excellent! I'm hoping to use imageJ to simulate a virtual learning environment for plant science students. hopefully this will work, I may have questions in due course!
Hello, am wondering why you have set the scale according to the Olympus magnification 20x ? and what will happen if we do not set the scale? thanks
Very good introduction. At 4:55, it is a Java application, not JavaScript. They are different.
Hi, I have an image (SEM-micrograph) with a scale bar below but I need to know the magnification. Can I use ImageJ to find the magnification?
thank you so much, very helpful! I wish you had more tutorials!
Hello I downloaded (fiji is just) ImageJ, i am trying to cut parts from my 3d viewer but as soon as I select "freehand selection" (or any else selection type) my fiji software crashes and quits on its own (btw i have installed it on my Ubuntu 16.04). Can you please advice me what should i do to resolve this problem. Thanks in advance :)
is the procedure still the same for downloading it?
Hey! Is it possible to detect colored particles and fibers with this program? I mean not just counting the pixels which are colored but to count particles. Thanks in advance :-)
Can we use Fiji to alter the brightness of multiple images at once? Like, "apply to all" kinda option
Reply
I'm not clear on the installation process for Mac OSX.
Unable to download that version anymore.
Sorry I coundn't find the RGB splitting button or plugin.
Can you please send me a link to install it?
Bests
Comprehensive explanation. Extremely helpful. Could you please upload more tutorials?
Are you using a plugin for tweaking the RGB channels and histograms? I can't seem to find the exact one you are using.
Install FIJI which is imagej with preinstalled plugins
Histograms appear in Image > Adjust > Color balance. From there you can manipulate the RGB.
HOW WE CAN CALCULATE PERCENTAGE OF CELL POSITIVE FOR EGFR IN IMMUNOHISTOCHEMTRY STAINED IMAGE . I ALSO NEED TO CALCULATE TOTAL NUMBER OF CELL PRESENT IN THE IMAGE? CAN SOMEONE HELP?
There is no way to download the RGB montage plugin...can someone help me with this?
Hello, I watched your video because I'm planning to use ImageJ as a tool for the analysis of data and results of my master's thesis. I would just like to ask some simple questions that I have about using ImageJ:
1) Is there a functionality or option in ImageJ that allows the user to count the number of pixels of a particular color and/or get its percentage from the total number of pixels? For example, I have an image with color A and B, I want to get the percentage of the total number of pixels of color A, or color B. (For simplicity, we can let color A = black, and color B = white)
2) For getting the percentage of total number of pixels, which ImageJ would you recommend for me to download and use, the basic ImageJ that you first showed in the video or the MBF ImageJ which you used in the video?
I would really appreciate if you could respond to my queries, it will be a great help. Thanks in advance.
Hello, i have the same exact question like you.
Have you gotten any answer for your questions?
Thanks!
+Jar Carlo Ramirez
very nice detail tutorial.
do you have a tutorial about how to write imageJ plugin?
Where can I find the MBF imageJ? The site that you mentioned seems to be dead
Hi,
MBF have shut off their webpage, but the even better news is that all of the plugins are still available as a single zip file. Just go to the plugins> collections (imagej.nih.gov/ij/plugins/index.html#collections) and you can get the lot into the latest version of ImageJ or Fiji. There are also instruction of how to install it.
Hope that helps.
When will 02 be out?
Hi I am looking for an analyst who could uese D-strech
Nice sir
Thank you very much! You really helped me :)
really usefull for me! thanks a loT!!! love it!
Good video, I have one question, I have problems with open a image in format TIFF, the software say me that ImageJ can only open 8 and 16 bits/channel images (12), my pictures are 24 bits but I read the manual I undestand that ImageJ can open to 32 bits pictures, Can somebody help me please? Excuse me for bad english
Thank You for your tutorial. The download of ImageJ microscopy is not available in the site. It will very helpful if you will provide me link to download this file. Thank You. Waiting eagerly for your kind reply.
Thank you so much
Thank you
Thank You :)
Try Fiji.... it's a much better way to do ImageJ
very confused
get a popfilter please. my poor ears
please stop raising the tone of your voice at the end of every sentence making every sentence sound like a question.