learn_field: Learn field

In itol.toolkit: Helper Functions for 'Interactive Tree Of Life'

Learn field

Description

learn field paramters as list

Usage

learn_field(lines, sep)

Arguments

lines	a vector of character strings from template file.
sep	a character specifying the separator.

Value

a list of field parameters containing

labels	a vector of characters specifying the filed name. In DATASET_HEATMAP, the labels are shown as heatamp column names.
colors	define colors for each individual field column (use hexadecimal, RGB or RGBA notation; if using RGB/RGBA, COMMA cannot be used as SEPARATOR)
shapes	Shape should be a number between 1 and 6, or any protein domain shape definition. 1-square, 2-circle, 3-star, 4-right pointing triangle, 5-left pointing triangle, 6-checkmark

Examples

tree <- system.file("extdata",
                    "tree_of_itol_templates.tree",
                    package = "itol.toolkit")
df_frequence <- data.table::fread(system.file("extdata",
                                              "templates_frequence.txt",
                                              package = "itol.toolkit"))
## create unit
unit <- create_unit(data = df_frequence,
                    key = "Quickstart",
                    type = "DATASET_HEATMAP",
                    tree = tree)
## write unit
file <- tempfile()
write_unit(unit,file)
## Learn legend parameters
lines <- line_clean(file=file)
sep = learn_separator(file = file)
learn_field(lines = lines, sep = sep)

itol.toolkit documentation built on Nov. 18, 2023, 5:11 p.m.