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Function that generate an Heatmap of Fst and CI values

Usage

heatmap_fst(
  pairwise.fst = NULL,
  pairwise.fst.full.matrix = NULL,
  pairwise.fst.ci.matrix = NULL,
  pop.levels = NULL,
  n.s = TRUE,
  digits = 5,
  color.low = "blue",
  color.mid = "yellow",
  color.high = "red",
  text.size = 4,
  plot.size = NULL,
  path.folder = NULL,
  filename = NULL
)

Arguments

pairwise.fst

(object or path). Tibble with all the info generated by fst_WC84. If this is not used, pairwise.fst.full.matrix and pairwise.fst.ci.matrix are both required.

pairwise.fst.full.matrix

(object or path).

pairwise.fst.ci.matrix

(object or path).

pop.levels

(optional, character, string) If not supplied, the order is set from the colnames of the full fst matrix. Default: pop.levels = NULL.

n.s

(optional, logical) To have an * when the Fst value is not significant (0 is the lower bound of the CI). Default: n.s = TRUE.

digits

(optional, integer) The number of digits showed in the heatmap. Default: digits = 5.

color.low

(optional, character) Color of lower bound. Default: color.low = "blue".

color.mid

(optional, character) Mid color value. Default: color.mid = "yellow".

color.high

(optional, character) Color of higher bound. Default: color.high = "red".

text.size

(optional, integer) Size of the values. Default: text.size = 2.

plot.size

(optional, integer) By default the size is the number of strata * 2 in cm. Default: plot.size = NULL.

path.folder

(optional, character) Default: path.folder = NULL. Default will use the working directory.

filename

(optional, character) Name of the plot to write. Default: filename = NULL. With default, the plot is not written to disk.