Great tutorial! Thanks for featuring this software so well. For training the classifier we recommend to use thin labels. Thus, using only a brush of 1 px size and then label your structures of interest. Since with a thick brush you supply a lot of very similar pixels to the Random Forest Pixel Classifier. Thin labels that are sampling from different parts of the image are thus a better representation. We explain this in the Guidelines on the imagej wiki page.
Ajarn, somewhere you are unearthing something unique, novel and creative which I have not seen or come across.......Did not knew Fiji had these kind of plug-ins and only today, had a look at it, even though I was using it for many other purposes.....Thanks a lot, and I was able to work along with your tutorial today and could create masks for Mito and compared it with the Mito dataset (again those datasets were referred by you).......Have a clinet, who wants to inspect/predict rust on underwater marine products and I was planning to use Apeer Micro.....Will have two datasets, one from Apeer and another one using LabelKit and use them for segmentation......
Mr. Kannan, as part of my day job I have many conversations with very smart researchers using a variety of tools for image analysis. I learn a lot from these conversations and LabKit came out of these discussions. The world is filled with skilled people who are willing to share their knowledge. I hope you will find APEER useful for your projects. The deep learning tools are constantly evolving and we hope to include true instance segmentation in the near future.
Hello Sreeni, your videos are very helpful and informative.. ! I have a question regarding annotations, if we have 3 classes (like x,y,z) for annotation in dataset but in some images we don't have all three classes that occurs but only 2, so should we leave that class?, as after manual annotation, I have to feed all three classes into model. It is like in image we have persons, traffic signals, and roads. So if there are no person in an image but in other images there are persons, so how to annotate them? Like if I annotate the with only 2 classes roads and signals, will it make problem?
Hi! Thank you for this video! I am currently working with this program to analyze my data. How do you train a classifier on several different pictures. How many pictures should I use to train this classifier? I want to create a classifier that has been trained on many different images so that I do not need to paint background and foreground for each image I analyze and so that the segmentation is more standardized between images in a particular data set. thank you for you help!
Hello Mr Sreeni. Thank you for your very useful videos. I was wondering if you could help me to find the best method for detecting facial skin wrinkle detection
I always wondered what options there are for image labeling for semantic segmentation. Currently, I am using ArcGIS Pro for labeling of orthomosaics recorded via UAV. I just draw the polygons around the objects using the streaming tool (streams polygon nodes) and enter a label integer. The result is a polygon feature layer which I then convert to a .png or .tiff using the ArcGIS Pro Python API and GDAL. Unfortunately, the objects to label are so complex that I suppose there is no way I could use conventional ML to speed up the process. I wondered whether labeling with a pen on some giant touchscreen is a thing?
If you have a small data set, you are better off with traditional ML. If you have a lot of data, deep learning works great. As a rule of thumb, if you have about 150 to 200 objects in your training images, you can start thinking about deep learning.
Great tutorial! Thanks for featuring this software so well. For training the classifier we recommend to use thin labels. Thus, using only a brush of 1 px size and then label your structures of interest. Since with a thick brush you supply a lot of very similar pixels to the Random Forest Pixel Classifier. Thin labels that are sampling from different parts of the image are thus a better representation. We explain this in the Guidelines on the imagej wiki page.
Thank you very much Dr. Sreenivas for sharing and great thanks for such a great tutorial
Ajarn, somewhere you are unearthing something unique, novel and creative which I have not seen or come across.......Did not knew Fiji had these kind of plug-ins and only today, had a look at it, even though I was using it for many other purposes.....Thanks a lot, and I was able to work along with your tutorial today and could create masks for Mito and compared it with the Mito dataset (again those datasets were referred by you).......Have a clinet, who wants to inspect/predict rust on underwater marine products and I was planning to use Apeer Micro.....Will have two datasets, one from Apeer and another one using LabelKit and use them for segmentation......
Mr. Kannan, as part of my day job I have many conversations with very smart researchers using a variety of tools for image analysis. I learn a lot from these conversations and LabKit came out of these discussions. The world is filled with skilled people who are willing to share their knowledge.
I hope you will find APEER useful for your projects. The deep learning tools are constantly evolving and we hope to include true instance segmentation in the near future.
Hello Sreeni, your videos are very helpful and informative.. !
I have a question regarding annotations, if we have 3 classes (like x,y,z) for annotation in dataset but in some images we don't have all three classes that occurs but only 2, so should we leave that class?, as after manual annotation, I have to feed all three classes into model.
It is like in image we have persons, traffic signals, and roads. So if there are no person in an image but in other images there are persons, so how to annotate them? Like if I annotate the with only 2 classes roads and signals, will it make problem?
Hi! Thank you for this video! I am currently working with this program to analyze my data.
How do you train a classifier on several different pictures. How many pictures should I use to train this classifier?
I want to create a classifier that has been trained on many different images so that I do not need to paint background and foreground for each image I analyze and so that the segmentation is more standardized between images in a particular data set.
thank you for you help!
How to use this with 1000 images in a folder do we have to pick images one by one and export its bitmap , that is not very efficient
Can you please talk about labelling tool for annotation of 3D medical scans??
Thank your way of explaining is easy and clear thanks alot.
Very useful, thank you.
Hello Mr Sreeni. Thank you for your very useful videos. I was wondering if you could help me to find the best method for detecting facial skin wrinkle detection
I always wondered what options there are for image labeling for semantic segmentation. Currently, I am using ArcGIS Pro for labeling of orthomosaics recorded via UAV. I just draw the polygons around the objects using the streaming tool (streams polygon nodes) and enter a label integer. The result is a polygon feature layer which I then convert to a .png or .tiff using the ArcGIS Pro Python API and GDAL. Unfortunately, the objects to label are so complex that I suppose there is no way I could use conventional ML to speed up the process.
I wondered whether labeling with a pen on some giant touchscreen is a thing?
How to label the signal-based images using LabKit?
Great thanks
Can this be linked to the TWS plugin in ImageJ?
How can you tell if image segmentation is going to work with traditional ML or deeplearning?
If you have a small data set, you are better off with traditional ML. If you have a lot of data, deep learning works great. As a rule of thumb, if you have about 150 to 200 objects in your training images, you can start thinking about deep learning.
Thx