read_alitv | R Documentation |
this file contains sequences, links and (optionally) genes
read_alitv(file)
file |
path to json |
list with seqs, genes, and links
ali <- read_alitv("https://alitvteam.github.io/AliTV/d3/data/chloroplasts.json")
gggenomes(ali$genes, ali$seqs, links = ali$links) +
geom_seq() +
geom_bin_label() +
geom_gene(aes(fill = class)) +
geom_link()
p <- gggenomes(ali$genes, ali$seqs, links = ali$links) +
geom_seq() +
geom_bin_label() +
geom_gene(aes(color = class)) +
geom_link(aes(fill = identity)) +
scale_fill_distiller(palette = "RdYlGn", direction = 1)
p %>%
flip_seqs(5) %>%
pick_seqs(1, 3, 2, 4, 5, 6, 7, 8)
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