geom_helix.Rd
The layer of helix plot
geom_helix(helix_data, color_by = "length", overlap = FALSE, ...)
helix_data | a data frame. The file of nucleltide secondary structure and then read by ggmsa::readSSfile. |
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color_by | generate colors for helices by various rules, including integer counts and value ranges one of "length" and "value" |
overlap | Logicals. If TRUE, two structures data called predict and known must be given(eg:heilx_data = list(known = data1, predicted = data2)), plots the predicted helices that are known on top, predicted helices that are not known on the bottom, and finally plots unpredicted helices on top in black. |
... | additional parameter |
ggplot2 layers
Lang Zhou
RF03120 <- system.file("extdata/Rfam/RF03120_SS.txt", package="ggmsa") RF03120_fas <- system.file("extdata/Rfam/RF03120.fasta", package="ggmsa") SS <- readSSfile(RF03120, type = "Vienna")#> Warning: max里所有的参数都不存在;回覆-Infggmsa(RF03120_fas, font = NULL,border = NA, color = "Chemistry_NT", seq_name = FALSE) + geom_helix(SS)