Description Usage Arguments Value Author(s) Examples
Multiple sequence alignment layer for ggplot2. It plot sequence motifs.
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font |
font families, possible values are 'helvetical', 'mono', and 'DroidSansMono', 'TimesNewRoman'. Defaults is 'DroidSansMono'. |
color |
A Color scheme. One of 'Clustal', 'Chemistry_AA', 'Shapely_AA', 'Zappo_AA', 'Taylor_AA', 'LETTER', 'CN6', 'Chemistry_NT', 'Shapely_NT', 'Zappo_NT', 'Taylor_NT'. Defaults is 'Chemistry_AA'. |
adaptive |
A logical value indicating whether the overall height of seqlogo corresponds to the number of sequences.If is FALSE, seqlogo overall height = 4,fixedly. |
top |
A logical value. If TRUE, seqlogo is aligned to the top of MSA. |
custom_color |
A data frame with two cloumn called "names" and "color".Customize the color scheme. |
show.legend |
logical. Should this layer be included in the legends? |
... |
additional parameter |
A list
Lang Zhou
1 2 3 | #plot multiple sequence alignment and sequence motifs
f <- system.file("extdata/LeaderRepeat_All.fa", package="ggmsa")
ggmsa(f,font = NULL,color = "Chemistry_NT") + geom_seqlogo()
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