https://github.com/biojulia/sequencevariation.jl

Biological sequence variation
https://github.com/biojulia/sequencevariation.jl

biojulia biological-sequences biology variant-calling

Last synced: 9 months ago
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Biological sequence variation

• Host: GitHub
• URL: https://github.com/biojulia/sequencevariation.jl
• Owner: BioJulia
• License: mit
• Created: 2021-03-02T16:55:55.000Z (almost 5 years ago)
• Default Branch: master
• Last Pushed: 2023-04-09T01:51:15.000Z (over 2 years ago)
• Last Synced: 2025-04-11T13:45:43.691Z (9 months ago)
• Topics: biojulia, biological-sequences, biology, variant-calling
• Language: Julia
• Homepage: https://biojulia.net/SequenceVariation.jl
• Size: 371 KB
• Stars: 8
• Watchers: 3
• Forks: 3
• Open Issues: 5
• Metadata Files:
  • Readme: README.md
  • Changelog: CHANGELOG.md
  • License: LICENSE

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README

          
#  SequenceVariation

[![Project Status: WIP – Initial development is in progress, but there has not yet been a stable, usable release suitable for the public.](https://www.repostatus.org/badges/latest/wip.svg)](https://www.repostatus.org/#wip)

[![Latest Release](https://img.shields.io/github/release/BioJulia/SequenceVariation.jl.svg)](https://github.com/BioJulia/SequenceVariation.jl/releases/latest)

[![MIT license](https://img.shields.io/badge/license-MIT-green.svg)](https://github.com/BioJulia/SequenceVariation.jl/blob/master/LICENSE)

[![Stable documentation](https://img.shields.io/badge/docs-stable-blue.svg)](https://biojulia.github.io/SequenceVariation.jl/stable)

[![Latest documentation](https://img.shields.io/badge/docs-dev-blue.svg)](https://biojulia.github.io/SequenceVariation.jl/dev/)

[![DOI](https://zenodo.org/badge/343847382.svg)](https://zenodo.org/badge/latestdoi/343847382)

> This project follows the [semver](https://semver.org) _pro forma_ and uses the [OneFlow branching model](https://www.endoflineblog.com/oneflow-a-git-branching-model-and-workflow).

## Description

SequenceVariation provides a Julia vocabulary for comparing genetic mutations within biological sequences.

## Installation

You can install SequenceVariation from the [Julia REPL](https://docs.julialang.org/en/v1/manual/getting-started/).

Press `]` to enter [pkg mode](https://docs.julialang.org/en/v1/stdlib/Pkg/), and enter the following:

```julia

add SequenceVariation

```

## Testing

SequenceVariation is tested against Julia `1.6` (LTS), `1.X` (release) and nightly on Linux.

**Latest build status:**

[![Unit Tests](https://github.com/BioJulia/SequenceVariation.jl/actions/workflows/UnitTests.yml/badge.svg?branch=master)](https://github.com/BioJulia/SequenceVariation.jl/actions/workflows/UnitTests.yml)

[![Documentation](https://github.com/BioJulia/SequenceVariation.jl/workflows/Documentation/badge.svg?branch=master)](https://github.com/BioJulia/SequenceVariation.jl/actions?query=workflow%3ADocumentation+branch%3Amaster)

[![codecov](https://codecov.io/gh/BioJulia/SequenceVariation.jl/branch/master/graph/badge.svg)](https://codecov.io/gh/BioJulia/SequenceVariation.jl)

[![Aqua QA](https://raw.githubusercontent.com/JuliaTesting/Aqua.jl/master/badge.svg)](https://github.com/JuliaTesting/Aqua.jl)

## Contributing

We appreciate [contributions](https://github.com/BioJulia/SequenceVariation.jl/graphs/contributors) from users including reporting bugs, fixing issues, improving performance and adding new features.

Take a look at the [contributing files](https://github.com/BioJulia/Contributing) for detailed contributor and maintainer guidelines, and code of conduct.

### Financial contributions

We also welcome financial contributions in full transparency on our [open collective](https://opencollective.com/biojulia).

Anyone can file an expense.

If the expense makes sense for the development the core contributors and the person who filed the expense will be reimbursed.

## Backers & Sponsors

Thank you to all our backers and sponsors!

Love our work and community? [Become a backer](https://opencollective.com/biojulia#backer).

[![backers](https://opencollective.com/biojulia/backers.svg?width=890)](https://opencollective.com/biojulia#backers)

Does your company use BioJulia?

Help keep BioJulia feature rich and healthy by [sponsoring the project](https://opencollective.com/biojulia#sponsor).

Your logo will show up here with a link to your website.

[![](https://opencollective.com/biojulia/sponsor/0/avatar.svg)](https://opencollective.com/biojulia/sponsor/0/website)

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## Questions?

If you have a question about contributing or using BioJulia software, come on over and chat to us on [the Julia Slack workspace](https://julialang.org/slack/), or you can try the [Bio category of the Julia discourse site](https://discourse.julialang.org/c/domain/bio).