seqLogo - Plotting the position weight matrix of a DNA/RNA sequence motif as a sequence logo

Software status

 

Bioc (release) Bioc (devel)
OS Platforms Platforms
Bioc Last Update Bioconductor-release Last Commit Bioconductor-devel Last Commit
Bioc Status Bioconductor-release Build Status Bioconductor-devel Build Status
GitHub Last Commit GitHub last commit (Bioconductor-release) GitHub last commit (Bioconductor-devel)
GitHub Actions R build status R build status
Coverage Codecov.io (Bioconductor-release) Codecov.io (Bioconductor-devel)

Authors

  • Oliver Bembom
  • Robert Ivanek

Overview

seqLogo takes the position weight matrix of a DNA sequence motif and plots the corresponding sequence logo as introduced by Schneider and Stephens (1990).

Installation

Release version 

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")
BiocManager::install("seqLogo", version = "release")

Developmental version 

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")
BiocManager::install("seqLogo", version = "devel")

Github 

if (!requireNamespace("remotes", quietly = TRUE))
    install.packages("remotes")
remotes::install_github("ivanek/seqLogo")

Usage

For detailed instructions check the package vignette (release or developmental version). Or the GitHub.io page.

Citation 

citation("seqLogo")
  • Oliver Bembom and Robert Ivanek (2020). seqLogo: Sequence logos for DNA sequence alignments.