I tried to classify protein using its sequences into their families. Can I use deep convolutional models on this purpose even though they use RGB 3 input metrics of an image? Is there any specific way to convert dataset other than the image in order to classify using these models. I'm new to Artificial neural networks, your suggestions are highly appreciated.
First you need to understand that the models you have in mind are tasked with a very difficult problem: Object Recognition in colored images therefore the models used are very big.
Then you need to know the purpose of using CNNs, is to extract as many features as we can from colored images in order to perform detection.
With the knowledge above considered I think classifying protein using its sequences seems achievable with a much more smaller convolutional model. You may need at max 10 layers of convolution. To conclude you should not need a CNN as complex as google inception model.
About your data: There is no rule about CNNs which say you can only use RGB pictures. These pictures are only arrays. If you have any kind of numeric data which can be used in algorithmic operations ofcourse, you can definitely use CNNs for feature extraction. I recommend you to take a look at this example.
I also recommend you to take a look at the following libraries. SK-LEARN, KERAS and PYTORCH. These libraries are very begginer friendly and they have amazing documentaries.
Best of luck.
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Am a complete noob and I just want to ask, do we need to preprocess images (like manually) before feeding the image into CNN for training? I've read that CNN already has some filtering techniques to extract features and such. I'm thinking what if all the train images are binary images or even just edges (teaching the model for shapes), is it advisable or I'll just feed grayscale images? Additionally, if the answer is yes, may I know what kind of preparation is done normally or what you would use?
I am aware of the other preprocessing techniques by Keras, such as the VGG16, but I would like something simple and manual.
The preprocessing functions of Keras only preprocess the input according to the state-of-the-art models requirements, e.g., changing the data format etc. May be, what you are talking about is hand-engineered features, which is not simple. And I think, it's not advisable because CNN does a better job. But it may also depend on what you actually want to do.
I am currently testing out custom object detection using the Tensorflow API. But I don't quite seem to understand the theory behind it.
So if I for example download a version of MobileNet and use it to train on, lets say, red and green apples. Does it forget all the things that is has already been trained on? And if so, why does it then benefit to use MobileNet over building a CNN from scratch.
Thanks for any answers!
Does it forget all the things that is has already been trained on?
Yes, if you re-train a CNN previously trained on a large database with a new database containing fewer classes it will "forget" the old classes. However, the old pre-training can help learning the new classes, this is a training strategy called "transfert learning" of "fine tuning" depending on the exact approach.
As a rule of thumb it is generally not a good idea to create a new network architecture from scratch as better networks probably already exist. You may want to implement your custom architecture if:
You are learning CNN's and deep learning
You have a specific need and you proved that other architectures won't fit or will perform poorly
Usually, one take an existing pre-trained network and specialize it for their specific task using transfert learning.
A lot of scientific literature is available for free online if you want to learn. you can start with the Yolo series and R-CNN, Fast-RCNN and Faster-RCNN for detection networks.
The main concept behind object detection is that it divides the input image in a grid of N patches, and then for each patch, it generates a set of sub-patches with different aspect ratios, let's say it generates M rectangular sub-patches. In total you need to classify MxN images.
In general the idea is then analyze each sub-patch within each patch . You pass the sub-patch to the classifier in your model and depending on the model training, it will classify it as containing a green apple/red apple/nothing. If it is classified as a red apple, then this sub-patch is the bounding box of the object detected.
So actually, there are two parts you are interested in:
Generating as many sub-patches as possible to cover as many portions of the image as possible (Of course, the more sub-patches, the slower your model will be) and,
The classifier. The classifier is normally an already exisiting network (MobileNeet, VGG, ResNet...). This part is commonly used as the "backbone" and it will extract the features of the input image. With the classifier you can either choose to training it "from zero", therefore your weights will be adjusted to your specific problem, OR, you can load the weigths from other known problem and use them in your problem so you won't need to spend time training them. In this case, they will also classify the objects for which the classifier was training for.
Take a look at the Mask-RCNN implementation. I find very interesting how they explain the process. In this architecture, you will not only generate a bounding box but also segment the object of interest.
I want to build a simple image detector for custom Binary shapes on images.
I may train and use the models on object detection zoo such as ssd_inception_v2 and so on. But it's would be extremely un efficient as it has sizes in hundreds of Megabytes.
and I can't even imagine to use that in my simple app. can anybody suggest me how to solve this?
I have already built excellent small size classifiers for my images. but can't build small scale efficient detector. (their position with detection boxes)
I think what you need is transfer learning. I would take one of the lightweight models such as MobileNetV2 and retrain on my dataset. It should be pretty quick.If you want to even decrease your model size further, feel free to only take the first few layers of the CNN and retrain it. It would be a bit more work since you need to re-write the part of network you want to use and load it with the pre-trained weights.
I successfully trained a CNN for a single image classification, using pre-trained resnet50 from tensorflow_hub.
Now my goal is to give as input to my network a chronological sequence of images (not a video), to classify the behavior of the subject.
Each sequence consists of 20 images taken every 100ms.
What is the best kind of NN? Where can I find documentation/examples for problems similar to mine?
Any time there is sequential data some type of Recurrent Neural Network is a great candidate (usually in the form of an LSTM).
Your model may look like a combination of an CNN-LSTM because your pictures have some sort of sequential relationship.
Here is a link to some examples and tutorials. He will set up a CNN in his example but you could probably rig your architecture to use the resNet you have already made. Though your are not dealing with a video your problem shares the same domain.
Here is a paper than uses a NN architecture like the one described above you might find useful.
I'm using cnn built by keras(tensorflow) to do visual recognition.
I wonder if there is a way to know what my own tensorflow model "see".
Google had a news showing the cat face in the AI brain.
https://www.smithsonianmag.com/innovation/one-step-closer-to-a-brain-79159265/
Can anybody tell me how to take out the image in my own cnn networks.
For example, what my own cnn model recognize a car?
We have to distinguish between what Tensorflow actually see:
As we go deeper into the network, the feature maps look less like the
original image and more like an abstract representation of it. As you
can see in block3_conv1 the cat is somewhat visible, but after that it
becomes unrecognizable. The reason is that deeper feature maps encode
high level concepts like “cat nose” or “dog ear” while lower level
feature maps detect simple edges and shapes. That’s why deeper feature
maps contain less information about the image and more about the class
of the image. They still encode useful features, but they are less
visually interpretable by us.
and what we can reconstruct from it as a result of some kind of reverse deconvolution (which is not a real math deconvolution in fact) process.
To answer to your real question, there is a lot of good example solution out there, one you can study it with success: Visualizing output of convolutional layer in tensorflow.
When you are building a model to perform visual recognition, you actually give it similar kinds of labelled data or pictures in this case to it to recognize so that it can modify its weights according to the training data. If you wish to build a model that can recognize a car, you have to perform training on a large train data containing labelled pictures. This type of recognition is basically a categorical recognition.
You can experiment with the MNIST dataset which provides with a dataset of pictures of digits for image recognition.