https://omarwagih.github.io/ggseqlogo/

Publication-quality sequence logos in R
https://omarwagih.github.io/ggseqlogo/

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Publication-quality sequence logos in R

• Host: GitHub
• URL: https://omarwagih.github.io/ggseqlogo/
• Owner: omarwagih
• Created: 2017-02-18T21:49:26.000Z (over 7 years ago)
• Default Branch: master
• Last Pushed: 2024-10-13T15:48:53.000Z (about 1 month ago)
• Last Synced: 2024-10-28T16:59:59.811Z (19 days ago)
• Language: R
• Homepage:
• Size: 10.8 MB
• Stars: 202
• Watchers: 13
• Forks: 30
• Open Issues: 24
• Metadata Files:
  • Readme: README.md

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README

        



[![](http://cranlogs.r-pkg.org/badges/ggseqlogo)](http://cran.rstudio.com/web/packages/ggseqlogo/index.html)

[![](https://www.r-pkg.org/badges/version/ggseqlogo)](http://cran.rstudio.com/web/packages/ggseqlogo/index.html)

	

ggseqlogo is an R package for generating publication-ready sequence logos using ggplot2. 

## Getting started

First install `ggseqlogo` from github using the `devtools` package:

```r

devtools::install_github("omarwagih/ggseqlogo")

```

Load up the package and sample data

```r

# Load the required packages

require(ggplot2)

require(ggseqlogo)

# Some sample data

data(ggseqlogo_sample)

```

Then draw a sequence logo

```r

# Plot DNA sequence logo for transcription factor - data from JASPAR

ggseqlogo( seqs_dna$MA0001.1 )

# Plot protein sequence logo for kinase target phosphosites

ggseqlogo( seqs_aa$AKT1 )

```

For more examples, and a list of features **[see the full tutorial here](http://omarwagih.github.io/ggseqlogo/)**.

## Tutorial

A detailed tutorial on how to use ggseqlogo **[can be found here](http://omarwagih.github.io/ggseqlogo/)**.

## Citation

If you use ggseqlogo, please cite:

Wagih, Omar. ggseqlogo: a versatile R package for drawing sequence logos. _Bioinformatics_ 33, no. 22 (2017): 3645-3647.

[https://doi.org/10.1093/bioinformatics/btx469](https://doi.org/10.1093/bioinformatics/btx469) PMID: [29036507](https://www.ncbi.nlm.nih.gov/pubmed/29036507)

## Feedback

If you have any feedback or suggestions, drop me a line at (omarwagih(at)gmail.com) or open an issue on github.