218 skills found · Page 2 of 8
KalyanM45 / OpenHealthThis repository houses machine learning models and pipelines for predicting various diseases, coupled with an integration with a Large Language Model for Diet and Food Recommendation. Each disease prediction task has its dedicated directory structure to maintain organization and modularity.
biomed-AI / GraphSiteGraphSite: protein-DNA binding site prediction using graph transformer and predicted protein structures
psipred / DMPfoldDe novo protein structure prediction using iteratively predicted structural constraints
brennanaba / ImmuneBuilderPredict the structure of immune receptor proteins
psipred / PsipredPSIPRED Protein Secondary Structure Predictor
yazdanimehdi / AttentionSiteDTIThis is The repository for Paper "AttentionSiteDTI: Attention Based Model for Predicting Drug-Target Interaction Using Graph Representation of Ligands and 3D Structure of Protein Binding Sites"
Genentech / GnepropGNEprop is a graph neural network-based model to predict antibacterial activity from molecular structures in virtual screening settings.
kevinmicha / ANTIPASTIANTIPASTI (ANTIbody Predictor of Affinity from STructural Information) is a Deep Learning model that predicts the binding affinity of antibodies from their three-dimensional structure.
mudigosa / Image ClassifierImage Classifier Going forward, AI algorithms will be incorporated into more and more everyday applications. For example, you might want to include an image classifier in a smartphone app. To do this, you'd use a deep learning model trained on hundreds of thousands of images as part of the overall application architecture. A large part of software development in the future will be using these types of models as common parts of applications. In this project, you'll train an image classifier to recognize different species of flowers. You can imagine using something like this in a phone app that tells you the name of the flower your camera is looking at. In practice, you'd train this classifier, then export it for use in your application. We'll be using this dataset of 102 flower categories. When you've completed this project, you'll have an application that can be trained on any set of labelled images. Here your network will be learning about flowers and end up as a command line application. But, what you do with your new skills depends on your imagination and effort in building a dataset. This is the final Project of the Udacity AI with Python Nanodegree Prerequisites The Code is written in Python 3.6.5 . If you don't have Python installed you can find it here. If you are using a lower version of Python you can upgrade using the pip package, ensuring you have the latest version of pip. To install pip run in the command Line python -m ensurepip -- default-pip to upgrade it python -m pip install -- upgrade pip setuptools wheel to upgrade Python pip install python -- upgrade Additional Packages that are required are: Numpy, Pandas, MatplotLib, Pytorch, PIL and json. You can donwload them using pip pip install numpy pandas matplotlib pil or conda conda install numpy pandas matplotlib pil In order to intall Pytorch head over to the Pytorch site select your specs and follow the instructions given. Viewing the Jyputer Notebook In order to better view and work on the jupyter Notebook I encourage you to use nbviewer . You can simply copy and paste the link to this website and you will be able to edit it without any problem. Alternatively you can clone the repository using git clone https://github.com/fotisk07/Image-Classifier/ then in the command Line type, after you have downloaded jupyter notebook type jupyter notebook locate the notebook and run it. Command Line Application Train a new network on a data set with train.py Basic Usage : python train.py data_directory Prints out current epoch, training loss, validation loss, and validation accuracy as the netowrk trains Options: Set direcotry to save checkpoints: python train.py data_dor --save_dir save_directory Choose arcitecture (alexnet, densenet121 or vgg16 available): pytnon train.py data_dir --arch "vgg16" Set hyperparameters: python train.py data_dir --learning_rate 0.001 --hidden_layer1 120 --epochs 20 Use GPU for training: python train.py data_dir --gpu gpu Predict flower name from an image with predict.py along with the probability of that name. That is you'll pass in a single image /path/to/image and return the flower name and class probability Basic usage: python predict.py /path/to/image checkpoint Options: Return top K most likely classes: python predict.py input checkpoint ---top_k 3 Use a mapping of categories to real names: python predict.py input checkpoint --category_names cat_To_name.json Use GPU for inference: python predict.py input checkpoint --gpu Json file In order for the network to print out the name of the flower a .json file is required. If you aren't familiar with json you can find information here. By using a .json file the data can be sorted into folders with numbers and those numbers will correspond to specific names specified in the .json file. Data and the json file The data used specifically for this assignemnt are a flower database are not provided in the repository as it's larger than what github allows. Nevertheless, feel free to create your own databases and train the model on them to use with your own projects. The structure of your data should be the following: The data need to comprised of 3 folders, test, train and validate. Generally the proportions should be 70% training 10% validate and 20% test. Inside the train, test and validate folders there should be folders bearing a specific number which corresponds to a specific category, clarified in the json file. For example if we have the image a.jpj and it is a rose it could be in a path like this /test/5/a.jpg and json file would be like this {...5:"rose",...}. Make sure to include a lot of photos of your catagories (more than 10) with different angles and different lighting conditions in order for the network to generalize better. GPU As the network makes use of a sophisticated deep convolutional neural network the training process is impossible to be done by a common laptop. In order to train your models to your local machine you have three options Cuda -- If you have an NVIDIA GPU then you can install CUDA from here. With Cuda you will be able to train your model however the process will still be time consuming Cloud Services -- There are many paid cloud services that let you train your models like AWS or Google Cloud Coogle Colab -- Google Colab gives you free access to a tesla K80 GPU for 12 hours at a time. Once 12 hours have ellapsed you can just reload and continue! The only limitation is that you have to upload the data to Google Drive and if the dataset is massive you may run out of space. However, once a model is trained then a normal CPU can be used for the predict.py file and you will have an answer within some seconds. Hyperparameters As you can see you have a wide selection of hyperparameters available and you can get even more by making small modifications to the code. Thus it may seem overly complicated to choose the right ones especially if the training needs at least 15 minutes to be completed. So here are some hints: By increasing the number of epochs the accuracy of the network on the training set gets better and better however be careful because if you pick a large number of epochs the network won't generalize well, that is to say it will have high accuracy on the training image and low accuracy on the test images. Eg: training for 12 epochs training accuracy: 85% Test accuracy: 82%. Training for 30 epochs training accuracy 95% test accuracy 50%. A big learning rate guarantees that the network will converge fast to a small error but it will constantly overshot A small learning rate guarantees that the network will reach greater accuracies but the learning process will take longer Densenet121 works best for images but the training process takes significantly longer than alexnet or vgg16 *My settings were lr=0.001, dropoup=0.5, epochs= 15 and my test accuracy was 86% with densenet121 as my feature extraction model. Pre-Trained Network The checkpoint.pth file contains the information of a network trained to recognise 102 different species of flowers. I has been trained with specific hyperparameters thus if you don't set them right the network will fail. In order to have a prediction for an image located in the path /path/to/image using my pretrained model you can simply type python predict.py /path/to/image checkpoint.pth Contributing Please read CONTRIBUTING.md for the process for submitting pull requests. Authors Shanmukha Mudigonda - Initial work Udacity - Final Project of the AI with Python Nanodegree
HongWuL / SAMPpred GATThe implementation of the paper sAMPpred-GAT: Prediction of Antimicrobial Peptide by Graph Attention Network and Predicted Peptide Structure
BojarLab / CandyCrunchPredicting glycan structure from LC-MS/MS data
diegoaldarondo / Virtual RodentRepository for "A virtual rodent predicts the structure of neural activity across behaviors"
BioinfoMachineLearning / MULTICOM3The software system of improving AlphaFold2- and AlphaFold-Multimer-based protein tertiary & quaternary structure prediction. It was developed by the Bioinformatics and Machine Learning Lab at the University of Missouri. It was blindly tested in CASP15 and ranked among the best server predictors in 2022. It improves AlphaFold's accuracy by 5-10%.
MrBriit / FLASK End To End Zomato Restaurant Price Prediction And Deployment# **ABSTRACT** Main Objective: The main agenda of this project is: Perform extensive Exploratory Data Analysis(EDA) on the Zomato Dataset. Build an appropriate Machine Learning Model that will help various Zomato Restaurants to predict their respective Ratings based on certain features DEPLOY the Machine learning model via Flask that can be used to make live predictions of restaurants ratings A step by step guide is attached to this documnet as well as a video explanation of each concpet. Zomato is one of the best online food delivery apps which gives the users the ratings and the reviews on restaurants all over india.These ratings and the Reviews are considered as one of the most important deciding factors which determine how good a restaurant is. We will therefore use the real time Data set with variuos features a user would look into regarding a restaurant. We will be considering Banglore City in this analysis. Content The basic idea of analyzing the Zomato dataset is to get a fair idea about the factors affecting the establishment of different types of restaurant at different places in Bengaluru, aggregate rating of each restaurant, Bengaluru being one such city has more than 12,000 restaurants with restaurants serving dishes from all over the world. With each day new restaurants opening the industry has’nt been saturated yet and the demand is increasing day by day. Inspite of increasing demand it however has become difficult for new restaurants to compete with established restaurants. Most of them serving the same food. Bengaluru being an IT capital of India. Most of the people here are dependent mainly on the restaurant food as they don’t have time to cook for themselves. With such an overwhelming demand of restaurants it has therefore become important to study the demography of a location. What kind of a food is more popular in a locality. Do the entire locality loves vegetarian food. If yes then is that locality populated by a particular sect of people for eg. Jain, Marwaris, Gujaratis who are mostly vegetarian. These kind of analysis can be done using the data, by studying the factors such as • Location of the restaurant • Approx Price of food • Theme based restaurant or not • Which locality of that city serves that cuisines with maximum number of restaurants • The needs of people who are striving to get the best cuisine of the neighborhood • Is a particular neighborhood famous for its own kind of food. “Just so that you have a good meal the next time you step out” The data is accurate to that available on the zomato website until 15 March 2019. The data was scraped from Zomato in two phase. After going through the structure of the website I found that for each neighborhood there are 6-7 category of restaurants viz. Buffet, Cafes, Delivery, Desserts, Dine-out, Drinks & nightlife, Pubs and bars. Phase I, In Phase I of extraction only the URL, name and address of the restaurant were extracted which were visible on the front page. The URl's for each of the restaurants on the zomato were recorded in the csv file so that later the data can be extracted individually for each restaurant. This made the extraction process easier and reduced the extra load on my machine. The data for each neighborhood and each category can be found here Phase II, In Phase II the recorded data for each restaurant and each category was read and data for each restaurant was scraped individually. 15 variables were scraped in this phase. For each of the neighborhood and for each category their onlineorder, booktable, rate, votes, phone, location, resttype, dishliked, cuisines, approxcost(for two people), reviewslist, menu_item was extracted. See section 5 for more details about the variables. Acknowledgements The data scraped was entirely for educational purposes only. Note that I don’t claim any copyright for the data. All copyrights for the data is owned by Zomato Media Pvt. Ltd.. Source: Kaggle
zzsfornlp / ZmspThe Mingled Structured Predictor
rxn4chemistry / Rxn Ir To StructurePredicting molecular structure from Infrared (IR) Spectra
paulmtree / Lung Segmentation ProjectThis project uses a process known as segmentation to extract individual lung components from CT scans such as the airway, bronchioles, outer lung structure, and cancerous growths. Mathematical descriptions of these objects can be used for AI research, such as predicting benign vs malignant tumors to prevent unnecessary and invasive cancer treatments, early recognition of tumors, and modeling the growth rate of tumors.
sabderra / Predictive Maintenance SparkPredicting the Remaining Useful Life (RUL) of simulated Turbofan Engines using Spark ML, Spark Structured Streaming, and Kafka.
ashishpatel26 / NYSE STOCK MARKET ANALYSIS USING LSTMStock market data can be interesting to analyze and as a further incentive, strong predictive models can have large financial payoff. The amount of financial data on the web is seemingly endless. A large and well structured dataset on a wide array of companies can be hard to come by. Here I provide a dataset with historical stock prices (last 5 years) for all companies currently found on the S&P 500 index.
Garima13a / MNIST GANIn this notebook, we'll be building a generative adversarial network (GAN) trained on the MNIST dataset. From this, we'll be able to generate new handwritten digits! GANs were first reported on in 2014 from Ian Goodfellow and others in Yoshua Bengio's lab. Since then, GANs have exploded in popularity. Here are a few examples to check out: Pix2Pix CycleGAN & Pix2Pix in PyTorch, Jun-Yan Zhu A list of generative models The idea behind GANs is that you have two networks, a generator 𝐺 and a discriminator 𝐷 , competing against each other. The generator makes "fake" data to pass to the discriminator. The discriminator also sees real training data and predicts if the data it's received is real or fake. The generator is trained to fool the discriminator, it wants to output data that looks as close as possible to real, training data. The discriminator is a classifier that is trained to figure out which data is real and which is fake. What ends up happening is that the generator learns to make data that is indistinguishable from real data to the discriminator. The general structure of a GAN is shown in the diagram above, using MNIST images as data. The latent sample is a random vector that the generator uses to construct its fake images. This is often called a latent vector and that vector space is called latent space. As the generator trains, it figures out how to map latent vectors to recognizable images that can fool the discriminator. If you're interested in generating only new images, you can throw out the discriminator after training. In this notebook, I'll show you how to define and train these adversarial networks in PyTorch and generate new images!
