plate_reader_normalization_pipeline: Run plate reader normalization pipeline

In hugo-pH/CyanoInterlabShinyApp: Cyano Interlab study Shiny App

Description

Function to combine all the background correction and normalization steps

Usage

plate_reader_normalization_pipeline(
  df.od,
  df.fl,
  bc_suffix,
  od_col = OD_730,
  fl_col = fl,
  background_correction = T,
  .norm_var,
  ref_strain,
  ref_induction,
  norm_suffix
)

Arguments

df.od	The plate reader OD data.frame.
df.fl	The plate reader fluorescence data.frame.
bc_suffix	The suffix that will be appended to the column name of the background-corrected variable.
od_col	The unqouted column name containing the OD values.
fl_col	The unqouted column name containing the fluorescence values.
background_correction	Logical indicating if background correction should be performed.
.norm_var	The unquoted column name of the variable to be normalized (i.e. fl_od).
ref_strain	The reference strain to normalize with.
ref_induction	The reference induction condition to normalize with.
norm_suffix	The suffix that will be appended to the column name of the normalized variable.

Value

A single data.frame containing new columns for background-corrected, fluorescence per OD and reference strain normalized data.

Examples

df.plate.reader <- plate_reader_normalization_pipeline(
df.od = load_plate_reader_od(df.experiments.raw),
df.fl = load_plate_reader_fl(df.experiments.raw),
bc_suffix = "bc",
.norm_var = fl_od,
ref_strain = "J23100",
ref_induction = "-",
norm_suffix  = "norm")

  

hugo-pH/CyanoInterlabShinyApp documentation built on Dec. 23, 2021, 11:15 p.m.