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Diagnosing Cancer with Computational Intelligence

I am a Computational Intelligence fanatic. This code serves as simple, single threaded code examples for 3 different CI paradigms. Also included is a tiny sinatra web app to demonstrate how one can expose the training and usage of a neural network in diagnosing cancer.

The problem of diagnosing cancer is actually a very simple problem for CI to solve, yet it's impact can be large. It really is just up to what kind of data we have access to, that will determine our creativity in the problems we can solve with CI.

The three CI paradigms are:

  • Evolutionary Computation via the Genetic Algorithm (lib/algo/ga.rb)
  • Run bundle exec ruby bin/ga as an executable example
  • Swarm Intelligence via the Particle Swarm Optimizer (lib/algo/pso.rb)
  • Run bundle exec ruby bin/pso as an executable example
  • Artificial Neural Networks via the NN PSO problem (lib/sims/problems/)
  • Run bundle exec ruby bin/nn_pso as an executable example
  • Run bundle exec ruby bin/sinatra && open 'http://localhost:4567' as a web service example

Installation

  • Dependencies: install these if you don't have them
  • Ruby 2.1.2 (I use rbenv to manage this)
  • Bundler & Rubygems

Follow these to download and install everything you need to run the algorithms:

  • Installation
  1. Clone the repo (git clone https://github.com/sighmin/diagnosing-cancer-with-ai)
  2. Change directory (cd diagnosing-cancer-with-ai)
  3. Install dependencies (bundle install)
  4. Run one of the examples (bundle exec ruby bin/pso, for instance)
  5. Explore the code

Structure

bin/             # executable examples (with with $ bundle exec ruby <example>)
data/            # datasets (only breast-cancer.csv is used in the examples)
lib/
  intelligence/
  math/          # math related code
  algo/          # algorithm classes & their iteration methods
  sims/          # simulator & problem classes bring it together
  ec/            # evolutionary specific code
  si/            # swarm specific code
  nn/            # neural networks
spec/            # rspec integration/unit tests for most of the code base

Usage

This project was intended to be clean examples of 3 different CI paradigms, and as such, is not intended to be 'used', but rather serve as readable examples of the algorithms/models in Ruby.

Contributing

Please suggest how I can improve my code, I love suggestions.

  1. Fork it ( https://github.com/sighmin/diagnosing-cancer-with-ai/fork )
  2. Create your feature branch (git checkout -b awesome-feature)
  3. Commit your changes (git commit -am 'feat: does something cool')
  4. Push to the branch (git push origin awesome-feature)
  5. Create a new Pull Request

License

Copyright (c) 2014 Simon van Dyk

MIT License

Permission is hereby granted, free of charge, to any person obtaining a copy of this software and associated documentation files (the "Software"), to deal in the Software without restriction, including without limitation the rights to use, copy, modify, merge, publish, distribute, sublicense, and/or sell copies of the Software, and to permit persons to whom the Software is furnished to do so, subject to the following conditions:

The above copyright notice and this permission notice shall be included in all copies or substantial portions of the Software.

THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE SOFTWARE.