shift {gggenomes}

Shift bins left/right

Description

Shift bins along the x-axis, i.e. left or right in the default plot layout. This is useful to align feats of interest in different bins.

Usage

shift(x, bins = everything(), by = 0, center = FALSE)

Arguments

x

gggenomes object

bins

to shift left/right, select-like expression

by

shift each bin by this many bases. Single value or vector of the same length as bins.

center

horizontal centering

Value

gggenomes object with shifted seqs

Examples

p0 <- gggenomes(emale_genes, emale_seqs) +
  geom_seq() + geom_gene()

# Slide one bin left and one bin right
p1 <- p0 |> shift(2:3, by = c(-8000, 10000))

# align all bins to a target gene
mcp <- emale_genes |>
  dplyr::filter(name == "MCP") |>
  dplyr::group_by(seq_id) |>
  dplyr::slice_head(n = 1) # some have fragmented MCP gene, keep only first

p2 <- p0 |> shift(all_of(mcp$seq_id), by = -mcp$start) +
  geom_gene(data = genes(name == "MCP"), fill = "#01b9af")

library(patchwork)
p0 + p1 + p2