read_varioscan: Reads Varioscan data from Excel

In MichielNoback/growthis: Loads, analyses and visualises Varioscan data

Reads Varioscan data from Excel

Description

Reads varioscan data from a given excel file. Assumes data is arranged in 96-well format (8 rows and 12 columns). It also assumes a triplicate experimental setup: 3 curves in triplo, each with a control at the fourth column. If the "General_info" tab does not contain metadata at the correct location (see below), the experiments argument will be used for the labeling. For increased ease in downstream analysis, the "General_info" tab should contain a block of metadata information starting at cell A28 and ending at cell E31. It should have three rows corresponding to the three growth series. The columns should contain "medium addition" (or title, e.g. anthocyanin X), "Strain" (e.g. K. pneumoniae), Date_extracted (in format day/month/year), and "Medium" (e.g. NB 5x Buffercap pH 6)

Usage

read_varioscan(
  xlsx_file,
  dilutions = c(0.02, 0.01, 0.005, 0.0025, 0.0013, 6e-04, 3e-04, 0),
  time_interval = 10
)

Arguments

xlsx_file	A varioscan data file
dilutions	the dilutions used in the subsequent rows for dose-response studies
time_interval	the time interval, in minutes, between each reading

Value

all data, in long format

MichielNoback/growthis documentation built on Jan. 4, 2023, 10:30 a.m.