Code Monkey home page Code Monkey logo

sardyne's Introduction

Sardyne: Estimating genome quality using pseudogenes

This is part of the Extremely Open Science Project, where we are developing a tool for genome evaluation in the open. See the project notes for more information.

Getting started

  1. Follow the instructions on notes/startup.md to get started.
  2. Get the data (data/ subdirectory) by running the download-data.py Jugfile (jug execute download-data.py).
  3. Change into the source/ directory and run the simulate.py Jugfile to run the main analysis (jug execute run-sardyne.py). This will take a while.
  4. The other files in source/ are exploring the results. This is a WIP.

Joining the project

  1. Subscribe on YouTube
  2. Join the mailing-list and write in with your thoughts and comments
  3. Join the discord server

References

  1. Many purported pseudogenes in bacterial genomes are bona fide genes by Cooley & Wright http://dx.doi.org/10.1186/s12864-024-10137-0

License: MIT

Recommend Projects

  • React photo React

    A declarative, efficient, and flexible JavaScript library for building user interfaces.

  • Vue.js photo Vue.js

    🖖 Vue.js is a progressive, incrementally-adoptable JavaScript framework for building UI on the web.

  • Typescript photo Typescript

    TypeScript is a superset of JavaScript that compiles to clean JavaScript output.

  • TensorFlow photo TensorFlow

    An Open Source Machine Learning Framework for Everyone

  • Django photo Django

    The Web framework for perfectionists with deadlines.

  • D3 photo D3

    Bring data to life with SVG, Canvas and HTML. 📊📈🎉

Recommend Topics

  • javascript

    JavaScript (JS) is a lightweight interpreted programming language with first-class functions.

  • web

    Some thing interesting about web. New door for the world.

  • server

    A server is a program made to process requests and deliver data to clients.

  • Machine learning

    Machine learning is a way of modeling and interpreting data that allows a piece of software to respond intelligently.

  • Game

    Some thing interesting about game, make everyone happy.

Recommend Org

  • Facebook photo Facebook

    We are working to build community through open source technology. NB: members must have two-factor auth.

  • Microsoft photo Microsoft

    Open source projects and samples from Microsoft.

  • Google photo Google

    Google ❤️ Open Source for everyone.

  • D3 photo D3

    Data-Driven Documents codes.