plot_growth_curve

Source: R/plot_growth_curve.R

Visualization of growth curve from Optical Density values generated by spectrophotometer like Cytation3

plot_growth_curve(
  dat_growth_curve,
  average_replicates = FALSE,
  select_replicates = NULL,
  palette_name = "all_colors",
  end_timepoint = NULL
)

Arguments

dat_growth_curve

a tibble, with first column as `Time` and after that columns as samples. If the samples have replicates mention them as `sampleName_replicate`, for example `CgFlu_R1` , `CgFlu_R2`, `CgFlu_R3`
average_replicates

logical, to plot average and standard deviation of replicates, Default: FALSE
palette_name

character,name palettes Default: 'all_colors' For individual palette;

  • Accent: 8

  • Dark2: 8

  • Paired: 12

  • Pastel1: 9

  • Pastel2: 8

  • Set1: 9

  • Set2: 8

  • Set3: 12
end_timepoint

numeric, the end time-point to be considered. Default:NULL (end-timepoint from data)
select_replicate

a vector, define replicates to be selected to plot, it should be anything after `_`. for eg. if only replicate R1 and R2 need to be plotted from samples CgFlu_R1, CgFlu_R2; the vector should be `c("R1", "R2")`, Default: NULL

Value

a plot of growth curve

Details

DETAILS

See also

gather,separate filter,mutate,group_by,select as_factor ggplot,aes,geom_point,geom_path,geom_crossbar,position_dodge,labs,facet_grid,theme,margin,ggtheme,scale_manual RColorBrewer

Examples

if (FALSE) {
if(interactive()){

  plot_growth_curve(dat_growth_curve = yeast_growth_data,average_replicates=TRUE, select_replicates=c("R1", "R2"))

  }
}