RJSplot (version 2.7)

circularfv_rjs: Pruduce a circular sequence viewer.

Description

circularfv_rjs creates a circular sequence viewer.

Usage

circularfv_rjs(sequence, features = FALSE,
               plot = TRUE, jupyter = FALSE, dir = tempdir())

Arguments

sequence

a "character" string giving the DNA sequence.

features

Data Frame with the segments that will be seen in the viewer. It cotains 5 columns which describes the identifier, start coordinate, stop coordinate, segment type and segment color.

plot

open resulting graph in your browser.

jupyter

embed the graph as an iframe into a Jupyter Notebook.

dir

a "character" string representing the directory where the graph will be saved.

Value

The function creates a folder in your computer with an HTML document named index.html which contains the graph. This file can be directly opened with your browser.

See Also

The ‘RJSplot’ Website: https://rjsplot.usal.es

dendrogram_rjs, densityplot_rjs, genomemap_rjs, heatmap_rjs, manhattan_rjs, network_rjs, scatterplot_rjs, symheatmap_rjs, wordcloud_rjs, boxplot_rjs, bubbles_rjs, hiveplot_rjs, piechart_rjs, barplot_rjs, tables_rjs, surface3d_rjs, scatter3d_rjs.

Examples

# NOT RUN {
if(interactive()){
## Creates a circular sequence viewer in a temporal directory of your local machine
## Generate test input data
sequence <- paste(sample(c("c","a","t","g"), 10000, replace = TRUE), collapse = "")
data <- matrix(round(runif(12,0,10000)),6,2)
features <- data.frame(id = 0:5, start = data[,1], stop = data[,2],
type = c("voluptate","non","voluptate","sit","et","proident"),
color = c("SandyBrown","Tan","Wheat","SteelBlue","LightSkyBlue","LightBlue"))

## Create the circular sequence viewver
circularfv_rjs(sequence, features)
}
# }