Giter Club home page Giter Club logo

fast5surfer's Introduction

fast5surfer (beta version)

Logo

A custom GUI based software tool for the handling, exploration and visualization of fast5 produced by sequencing instrumentations of the Oxford NanoPore Technology. To use the software tool:

  1. make a a git pull of the repository
  2. create a new Python virtual environment
  3. install all dependencies from the requirements.txt file
  4. open a new console and activate the new virtual environment
  5. lauch "python init.py" command to start the program.

Once done this, it is possible to use fast5surfer tool with its GUI. First of all select a folder with the "Select a folder to explore" button. After folder selection, the folder tree will be visualised and it is possibile to select from the left panel a valid fast5 to explore. The content of the selected fast5 file will be showed on the top of the right panel as a hierarchical representation of its structure. Either Attributes (metadata of groups and datasets elements of the fast5 file), Data and the plot will be reproduced on the bottom of the righ panel named "Fast5 File". The plot tab is available only for the fast5 dataset elements containing the raw ionic current signal.

To note: the software is a beta version and is intentended for hobby or personal purpose. Its perfect functioning is not guaranteed and no responsibility is assumed for the use of the software.

fast5surfer.2021-06-23.19-16-36_Trim.mp4

fast5surfer's People

Contributors

f0nz0 avatar

Watchers

 avatar

Recommend Projects

  • React photo React

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

  • Vue.js photo Vue.js

    ๐Ÿ–– 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. ๐Ÿ“Š๐Ÿ“ˆ๐ŸŽ‰

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 โค๏ธ Open Source for everyone.

  • D3 photo D3

    Data-Driven Documents codes.