rl_adjust_plate: Adjust Experimental Luminescent Data

In BradyAJohnston/reluxr: Deconvolute Luminescence Readings on Bacterial Culture Plates

Adjust Experimental Luminescent Data

Description

Using a deconvolution matrix, created through rl_calc_decon_matrix(), adjust the values in the col_value column to take into account bleed-through from surrounding wells.

Usage

rl_adjust_plate(data, value, mat_decon, time = "time", well = "well")

Arguments

data	A data frame that contains the experimental data.
value	The name of the column containing the values (i.e. 'lum').
mat_decon	A deconvolution matrix created through rl_calc_decon_matrix()
time	The name of the column containing the time values (i.e. 'time')
well	Name of the column with the well ID information.

Value

A dataframe with the specified column having been deconvoluted, using the supplied deconvolution matrix.

Examples

fl <- system.file(
  "extdata",
  "calibrate_tecan",
  "calTecan1.xlsx",
  package = "reluxr"
)

dat <- plate_read_tecan(fl)

mat_d_best <- dat |>
  dplyr::filter(signal != "OD600") |>
  dplyr::filter(time_s > 500) |>
  rl_calc_decon_matrix(value, time_s, ref_well = "E05", b_noise = 30)

dat |>
  dplyr::summarise(value = mean(value), .by = well) |>
  rl_plot_plate(value, trans = log10) +
  ggplot2::scale_fill_viridis_c(
    limits = c(1, NA)
  )

dat |>
  dplyr::filter(signal == "LUMI") |>
  rl_adjust_plate(value, mat_d_best, time = time_s) |>
  dplyr::summarise(value = mean(value), .by = well) |>
  rl_plot_plate(value, trans = log10) +
  ggplot2::scale_fill_viridis_c(
    limits = c(1, NA)
  )

BradyAJohnston/reluxr documentation built on March 20, 2023, 5:09 a.m.