generate_CB_report: Generate a PDF with CB raw results

In Vincent-AC/wellexplainer: Helper functions for MIC and Checkerboard experiments

Description

Generate a PDF with CB raw results, with each plate and CB results

Usage

generate_CB_report(title, date, max.conc.A, max.conc.B, data_file, species,
  negative_control_col = 12, positive_control_col = 11,
  highest_conc_col.A = 1, lowest_conc_col.A = 10, highest_conc_row.B = 8,
  lowest_conc_row.B = 1, number_of_lines = 8, startRow = 24,
  endRow = 32, knit_root_dir = getwd(), output_dir = getwd())

Arguments

title	Title of the PDF file
max.conc.A	vector giving the maximum concentration of antibiotic A.The first element the vector corresponds to the max concentration of antibiotic A for the first sheet.
max.conc.B	vector giving the maximum concentration of antibiotic B.The first element the vector corresponds to the max concentration of antibiotic B for the first sheet.
data_file	Path to the output from the plate reader
negative_control_col	Number of the column that contains the negative control. Defaults to 12
positive_control_col	Number of the column that contains the positive control. Defaults to 11
lowest_conc_col.A	Number of the column that contains the lowest concentration of ATB.A Defaults to 10
lowest_conc_row.B	Number of the row that contains the lowest concentration of ATB.B Defaults to 1
number_of_lines	Number of lines used by plate. Defaults to 8
knit_root_dir	Directory where the report should be knitted (using knitr) Defaults to the current working directory
output_dir	Directory where the PDF should be saved. Defaults to the current working directory

Examples

generate_CB_report()

Vincent-AC/wellexplainer documentation built on May 28, 2019, 3:21 p.m.