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69 lines
4.8 KiB
Markdown
69 lines
4.8 KiB
Markdown
# <img src="./docs/src/assets/logo.svg" width="30%" align="right" /> XAM.jl
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[![Project Status: Active – The project has reached a stable, usable state and is being actively developed.](https://www.repostatus.org/badges/latest/active.svg)](https://www.repostatus.org/#active)
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[![Latest Release](https://img.shields.io/github/release/BioJulia/XAM.jl.svg)](https://github.com/BioJulia/XAM.jl/releases/latest)
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[![MIT license](https://img.shields.io/badge/license-MIT-green.svg)](https://github.com/BioJulia/XAM.jl/blob/master/LICENSE)
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[![Stable documentation](https://img.shields.io/badge/docs-stable-blue.svg)](https://biojulia.github.io/XAM.jl/stable)
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[![Latest documentation](https://img.shields.io/badge/docs-dev-blue.svg)](https://biojulia.github.io/XAM.jl/dev/)
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[![Join the chat at https://gitter.im/BioJulia/XAM.jl](https://badges.gitter.im/BioJulia/XAM.jl.svg)](https://gitter.im/BioJulia/XAM.jl)
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> This project follows the [semver](http://semver.org) pro forma and uses the [git-flow branching model](https://nvie.com/posts/a-successful-git-branching-model/ "original
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blog post").
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## Description
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The XAM package provides I/O and utilities for manipulating SAM and BAM formatted alignment map files.
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## Installation
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You can install the XAM package from the [Julia REPL](https://docs.julialang.org/en/v1/manual/getting-started/).
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Press `]` to enter [pkg mode](https://docs.julialang.org/en/v1/stdlib/Pkg/), then enter the following command:
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```julia
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add XAM
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```
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If you are interested in the cutting edge of the development, please check out the [develop branch](https://github.com/BioJulia/XAM.jl/tree/develop) to try new features before release.
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## Testing
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XAM is tested against Julia `1.X` on Linux, OS X, and Windows.
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**Latest build status:**
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[![Unit tests](https://github.com/BioJulia/XAM.jl/workflows/Unit%20tests/badge.svg?branch=master)](https://github.com/BioJulia/XAM.jl/actions?query=workflow%3A%22Unit+tests%22+branch%3Amaster)
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[![Documentation](https://github.com/BioJulia/XAM.jl/workflows/Documentation/badge.svg?branch=master)](https://github.com/BioJulia/XAM.jl/actions?query=workflow%3ADocumentation+branch%3Amaster)
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[![codecov](https://codecov.io/gh/BioJulia/XAM.jl/branch/master/graph/badge.svg)](https://codecov.io/gh/BioJulia/XAM.jl)
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## Contributing
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We appreciate [contributions](https://github.com/BioJulia/XAM.jl/graphs/contributors) from users including reporting bugs, fixing issues, improving performance and adding new features.
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Take a look at the [contributing files](https://github.com/BioJulia/Contributing) detailed contributor and maintainer guidelines, and code of conduct.
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### Financial contributions
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We also welcome financial contributions in full transparency on our [open collective](https://opencollective.com/biojulia).
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Anyone can file an expense.
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If the expense makes sense for the development the core contributors and the person who filed the expense will be reimbursed.
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## Backers & Sponsors
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Thank you to all our backers and sponsors!
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Love our work and community? [Become a backer](https://opencollective.com/biojulia#backer).
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[![backers](https://opencollective.com/biojulia/backers.svg?width=890)](https://opencollective.com/biojulia#backers)
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Does your company use BioJulia?
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Help keep BioJulia feature rich and healthy by [sponsoring the project](https://opencollective.com/biojulia#sponsor).
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Your logo will show up here with a link to your website.
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[![](https://opencollective.com/biojulia/sponsor/0/avatar.svg)](https://opencollective.com/biojulia/sponsor/0/website)
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[![](https://opencollective.com/biojulia/sponsor/1/avatar.svg)](https://opencollective.com/biojulia/sponsor/1/website)
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[![](https://opencollective.com/biojulia/sponsor/2/avatar.svg)](https://opencollective.com/biojulia/sponsor/2/website)
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[![](https://opencollective.com/biojulia/sponsor/3/avatar.svg)](https://opencollective.com/biojulia/sponsor/3/website)
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[![](https://opencollective.com/biojulia/sponsor/4/avatar.svg)](https://opencollective.com/biojulia/sponsor/4/website)
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[![](https://opencollective.com/biojulia/sponsor/5/avatar.svg)](https://opencollective.com/biojulia/sponsor/5/website)
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[![](https://opencollective.com/biojulia/sponsor/6/avatar.svg)](https://opencollective.com/biojulia/sponsor/6/website)
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[![](https://opencollective.com/biojulia/sponsor/7/avatar.svg)](https://opencollective.com/biojulia/sponsor/7/website)
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[![](https://opencollective.com/biojulia/sponsor/8/avatar.svg)](https://opencollective.com/biojulia/sponsor/8/website)
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[![](https://opencollective.com/biojulia/sponsor/9/avatar.svg)](https://opencollective.com/biojulia/sponsor/9/website)
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## Questions?
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If you have a question about contributing or using BioJulia software, come on over and chat to us on [Gitter](https://gitter.im/BioJulia/General), or you can try the [Bio category of the Julia discourse site](https://discourse.julialang.org/c/domain/bio).
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