Code Monkey home page Code Monkey logo

hubward's Introduction

hubward

https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat-square

A common question when reading an interesting paper is, "how does relate to my favorite gene locus?". To address this question, usually we need to download the supplemental data, figure out what format it's in, convert it to some other useful format, and visualize it alongside our own data.

hubward helps manage this process, lowering the effort required to track, manage, organize, and upload many studies for cross-comparison in the UCSC Genome Browser.

Data are organized into track hubs on the UCSC Genome Browser, and the name hubward indicates the direction in which data are moved into these track hubs. It can also refer to a direction in other complex systems.

The separate repository, hubward-studies, contains examples of prepared track hubs. Subsets of these can be combined into user-defined hubs, or can serve as examples for preparing other studies.

Documentation can be found at https://daler.github.io/hubward.

Overview

This poster gives an overview of hubward, and provides a worked example.

Further details can be found in the full documentation.

hubward's People

Contributors

ctb avatar daler avatar

Stargazers

 avatar  avatar  avatar  avatar  avatar  avatar  avatar  avatar  avatar  avatar  avatar  avatar  avatar  avatar  avatar  avatar  avatar  avatar

Watchers

 avatar  avatar  avatar

hubward's Issues

needs update

I recently found this repository and must say it is an incredibly useful package. Thanks for creating it. However, it looks like the recent trackhub versions have changed the API resulting in errors launching hubward.

Further, if you are busy and would like help, I'd be more than happy to resolve some issues.

Traceback (most recent call last):
  File "/home/vivekrai/.anaconda3/envs/py2/bin/hubward", line 12, in <module>
    import hubward
  File "/home/vivekrai/.anaconda3/envs/py2/lib/python2.7/site-packages/hubward/__init__.py", line 4, in <module>
    import models
  File "/home/vivekrai/.anaconda3/envs/py2/lib/python2.7/site-packages/hubward/models.py", line 11, in <module>
    from trackhub.upload import upload_hub, upload_track, upload_file
ImportError: cannot import name upload_track

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.