as_seqs: Compute a layout for sequence data

In gggenomes: A Grammar of Graphics for Comparative Genomics

Compute a layout for sequence data

Description

Read sequence data of multiple genomes (contigs, chromosomes, ...) into a tidy dataframe and augment it with layout information necessary for plotting.

Usage

as_seqs(x, ...)

## S3 method for class 'tbl_df'
as_seqs(x, everything = TRUE, ...)

Arguments

x	an object convertible to a sequence layout
...	pass through to layout_seqs()
everything	set to FALSE to drop optional columns

Details

Obligatory columns are seq_id, bin_id and length.

Value

an tbl_df with plot coordinates

Methods (by class)

• as_seqs(tbl_df): Convert a list of tibbles into a seq layout

Examples

chr <- tibble::tibble(
  seq_id = c("a1", "b1", "b2"),
  bin_id = c(rep("A", 1), rep("B", 2)),
  length = c(5000, 3000, 1400)
)

as_seqs(chr)

gggenomes documentation built on Sept. 11, 2024, 8:55 p.m.