biojulia / genomebrowsers.jl

GenomeBrowsers.jl

Description

This a Julia interface to the Dalliance genome browser. It's designed to allow full featured visualization of genomic data within the comfort of a Jupyter notebook.

It works by converting Bio.jl structures to the efficient indexed formats BigBed and BigWig, which are kept in memory and served as needed to the browser front-end.

Installation

Install GenomeBrowsers from the Julia REPL:

using Pkg
add("GenomeBrowsers")
#Pkg.add("GenomeBrowsers") for julia prior to v0.7

Testing

GenomeBrowsers is tested against, julia v0.6 and 0.7-dev on Linux, OSX, and Windows.

Latest release	Latest build status

Contributing and Questions

We appreciate contributions from users including reporting bugs, fixing issues, improving performance and adding new features.

Take a look at the CONTRIBUTING file provided with this package for detailed contributor and maintainer guidelines.

If you have a question about contributing or using this package, come on over and chat to us on Discord, or you can try the Bio category of the Julia discourse site.

genomebrowsers.jl's Issues

⚠️ Is this package still maintained? ⚠️

We are in the process of cleaning up unmaintained packages from the BioJulia repo. Unmaintained repositories can be harmful to the ecosystem for several reasons:

• They reduce the findability of working packages
• Users may accidentally install an unmaintained package and be frustrated when it doesn't work
• In contributes to an impression that BioJulia is poorly maintained.

Is this package in a currently in a workable state with the newest version of Julia, and maintained by at least one dedicated maintainer?

If so, _simply reply to this issue that you are the maintainer, and we will close this issue. If not, we will make a pull request in approximately one month that changes the README and documentation to clearly state is it unmaintained. After yet another month, we will merge the PR, and archive the package.