https://github.com/zachcp/msaR

The BioJS MSA viewer wrapped into an R package
https://github.com/zachcp/msaR

alignment htmlwidgets multiple r sequence

Last synced: about 2 months ago
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The BioJS MSA viewer wrapped into an R package

• Host: GitHub
• URL: https://github.com/zachcp/msaR
• Owner: zachcp
• Fork: true (benediktrauscher/msaR)
• Created: 2016-10-20T20:56:01.000Z (over 7 years ago)
• Default Branch: master
• Last Pushed: 2021-09-22T02:14:13.000Z (almost 3 years ago)
• Last Synced: 2024-02-06T04:41:40.777Z (5 months ago)
• Topics: alignment, htmlwidgets, multiple, r, sequence
• Language: JavaScript
• Homepage: https://zachcp.github.io/msaR/
• Size: 839 KB
• Stars: 8
• Watchers: 4
• Forks: 8
• Open Issues: 3
• Metadata Files:
  • Readme: README.md

Lists

• awesome-shiny-extensions - msaR - BioJS-based MSA (multiple sequence alignment) viewer. (Visualization / Biological Data)
• repo-5916-awesome-genome-visualization - msaR - genome-visualization/msar.png) (MSA)
• awesome-genome-visualization - msaR

README

        


# msaR

[![CRAN\_Status\_Badge](http://www.r-pkg.org/badges/version/msaR)](https://cran.r-project.org/package=msaR)

msaR is a an [htmlwidgets](https://github.com/ramnathv/htmlwidgets)

wrapper of the [BioJS MSA viewer](https://github.com/wilzbach/msa)

javascript library. msa will pass alignments to the BioJS MSA.

## Installation

You can install msaR from CRAN or github:

``` r

# CRAN

install.packages("msaR")

#github

devtools::install_github("zachcp/msaR")

```

## Example

This is a basic example which shows you how to solve a common problem:

``` r

library(msaR)

# read some sequences from a multiple sequence alignment file and display

seqfile <- system.file("sequences","AHBA.aln", package="msaR")

msaR(seqfile, seqlogo = T)

```

![](man/figures/msaR_screenshot.png)

All contributions are welcome! Please feel free to submit a pull

request.

### Support and Suggestions

If you have any problem or suggestion please open an issue

[here](https://github.com/zachcp/msaR/issues)

### License

This project is licensed under the [Boost Software License

1.0](https://github.com/wilzbach/msa/blob/master/LICENSE).

> Permission is hereby granted, free of charge, to any person or

> organization obtaining a copy of the software and accompanying

> documentation covered by this license (the “Software”) to use,

> reproduce, display, distribute, execute, and transmit the Software,

> and to prepare derivative works of the Software, and to permit

> third-parties to whom the Software is furnished to do so, all subject

> to the following:

If you use the MSAViewer on your website, it solely requires you to link

to us