Create a GC Chart Visualization — GC

Generates an interactive GC chart for genomic data.

Usage

GC_chart(
  data,
  start = "start",
  end = "end",
  cluster = NULL,
  group = NULL,
  strand = NULL,
  width = "100%",
  height = "400px",
  style = list(),
  elementId = NULL,
  save_button = TRUE
)

Arguments

data: Data frame containing genomic information or the file path to a folder containing `.gbk` files. When providing a file path, the data is loaded and processed into a data frame internally.
start: Column name that indicates start positions. Default is "start".
end: Column name that indicates end positions. Default is "end".
cluster: Optional column name used for clustering purposes. Default is NULL.
group: Column name used for gene grouping to influence color aesthetics.
strand: Optional column name indicating strand orientation. Acceptable values include 1, 'forward', 'sense', or '+' to represent the forward strand, and -1, 0, 'reverse', 'antisense', "complement" or '-' to represent the reverse strand. Default is NULL, meaning strand information is not used.
width: Width specification for the chart, such as '100%' or 500. Default is unspecified.
height: Height specification for the chart, such as '400px' or 300. Default is unspecified.
style: A list of CSS styles to be applied to the chart container. Each element of the list should be a valid CSS property-value pair. For example, list(backgroundColor = "white", border = "2px solid black"). Default is an empty list.
elementId: Optional identifier string for the widget. Default is NULL.
save_button: Logical, whether to include a save button. Default is TRUE.

Value

A GC chart widget.

Examples

genes_data <- data.frame(
  start = c(10, 50, 90, 130, 170, 210),
  end = c(40, 80, 120, 160, 200, 240),
  name = c('Gene 1', 'Gene 2', 'Gene 3', 'Gene 4', 'Gene 5', 'Gene 6'),
  group = c('A', 'A', 'B', 'B', 'A', 'C'),
  cluster = c(1, 1, 1, 2, 2, 2)
)
# Load from data.frame
GC_chart(genes_data, group = "group", cluster = "cluster", height = "200px") %>%
GC_labels("name")


# Load from folder containing .gbk files
# file_path <- "~/path/to/folder/"
# GC_chart(file_path) %>%