DOI: 10.18129/B9.bioc.ggmsa    

This package is for version 3.14 of Bioconductor; for the stable, up-to-date release version, see ggmsa.

Plot Multiple Sequence Alignment using 'ggplot2'

Bioconductor version: 3.14

A visual exploration tool for multiple sequence alignment and associated data. Supports MSA of DNA, RNA, and protein sequences using 'ggplot2'. Multiple sequence alignment can easily be combined with other 'ggplot2' plots, such as phylogenetic tree Visualized by 'ggtree', boxplot, genome map and so on. More features: visualization of sequence logos, sequence bundles, RNA secondary structures and detection of sequence recombinations.

Author: Lang Zhou [aut, cre], Guangchuang Yu [aut, ths] , Shuangbin Xu [ctb], Huina Huang [ctb]

Maintainer: Lang Zhou <nyzhoulang at>

Citation (from within R, enter citation("ggmsa")):


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biocViews Alignment, Annotation, MultipleSequenceAlignment, Software, Visualization
Version 1.0.0
In Bioconductor since BioC 3.14 (R-4.1) (< 6 months)
License Artistic-2.0
Depends R (>= 4.1.0)
Imports Biostrings, ggplot2, magrittr, tidyr, utils, stats, aplot, RColorBrewer, ggalt, ggforce, dplyr, R4RNA, grDevices, seqmagick, grid, methods
Suggests ggtreeExtra, ggtree(>= 1.17.1), ape, cowplot, knitr, BiocStyle, rmarkdown, readxl, ggnewscale, kableExtra, gggenes, testthat (>= 3.0.0), phangorn
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