# Plot Multiple Sequence Alignment using 'ggplot2'

## Documentation for package ‘ggmsa’ version 1.0.0

- DESCRIPTION file.
- User guides, package vignettes and other documentation.

## Help Pages

available_colors | List Color Schemes currently available
available_fonts | List Font Families currently available
available_msa | List MSA objects currently available
facet_msa | segment MSA
geom_GC | geom_GC
geom_helix | geom_helix
geom_msa | geom_msa
geom_msaBar | geom_msaBar
geom_seed | geom_seed
geom_seqlogo | geom_seqlogo
gghelix | gghelix
ggmsa | ggmsa
ggSeqBundle | ggSeqBundle
Gram-negative_AKL.fasta | Gram-negative_AKL
Gram-positive_AKL.fasta | Gram-positive_AKL
GVariation | GVariation
LeaderRepeat_All.fa | A sample DNA alignment sequences
plot | plot method for SeqDiff object
plot-method | plot method for SeqDiff object
readSSfile | readSSfile
Rfam | Rfam
sample.fasta | A sample data used in ggmsa
seedSample.fa | microRNA data used in ggmsa
seqdiff | seqdiff
SeqDiff-class | show method
seqlogo | seqlogo
sequence-link-tree.fasta | sequence-link-tree
show | show method
show-method | show method
simplot | simplot
tidy_msa | tidy_msa
tp53.fa | TP53 MSA
TP53_genes.xlsx | genome locus