ggseqlogo

by omarwagih

omarwagih / ggseqlogo

Publication-quality sequence logos in R

132 Stars 16 Forks Last release: Not found 33 Commits 0 Releases

Available items

No Items, yet!

The developer of this repository has not created any items for sale yet. Need a bug fixed? Help with integration? A different license? Create a request here:

ggseqlogo logo

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

Getting started

First install

ggseqlogo
from github using the
devtools
package:
devtools::install_github("omarwagih/ggseqlogo")

Load up the package and sample data

# Load the required packages
require(ggplot2)
require(ggseqlogo)

Some sample data

data(ggseqlogo_sample)

Then draw a sequence logo

# 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.

Tutorial

A detailed tutorial on how to use ggseqlogo can be found here.

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 PMID: 29036507

Feedback

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

We use cookies. If you continue to browse the site, you agree to the use of cookies. For more information on our use of cookies please see our Privacy Policy.