qPCR_graph: A function to graph fold change qPCR data
In JaclynSmith/qPCRr: A Set of Functions to Process and Graph qPCR Data

View source: R/visualization_functions.R

A function to graph fold change qPCR data

qPCR_graph(
  table,
  x = "target_name",
  y = "fold_change",
  house_gene,
  color = "",
  xlab = "",
  ylab = "Fold Change\n",
  colorlab = "Expt",
  color_choices = c("#336699", "#9999FF", "black", "red"),
  ycoord_max = 5,
  replicates = "no_replicates",
  bars = "std_error",
  hline = "yes",
  coord_cart = "yes",
  theme = "jaclyn"
)

`table`	a tibble, columns are expt conditions, fold change, error, target_name
`x`	a character, the column title for the variable to be plotted on the x axis, target_name
`y`	a character, the column title for the variable to be plotted on the y axis, fold_change
`house_gene`	a character, gene to use as the housekeeping gene
`color`	a character/character list, the columns to group into color
`xlab`	a character, the label for the x axis, default is ""
`ylab`	a character, the label for the y axis, default is "Fold Change\n"
`colorlab`	a character, the label for the legend based on color, default is "Expt"
`color_choices,`	a character list, the colors you want to use for the graph
`ycoord_max`	a numeric, the max value for the fold change displayed on the graph
`replicates`	a character, "no replicates" or the list of columns to use for the replicates
`bars`	a character: "std_dev" or "std_error" type of error bars you will get on your graph
`hline`	a character: "yes" or "no", if yes, a horizontal line for fold change is 1 is added
`coord_cart`	a character: "yes" or "no", if no graph scaled to extent of data
`theme`	a character: "jaclyn" or "default", if default, the original theme applied and you can add your own theme later