Develop tutorial for growth curve analysis

[stephan-koenig]

• This module will be taught on Nov 23.

• On branch growth-curve.

• Place tutorial in inst/tutorials/growth_curve.

• Create a data table in well_information.csv format from well_information.png with the following columns:

  • student: use only generic names, i.e. student A, etc.
  • blank: TRUE for blanks, FALSE for wells with bacteria (i.e. wells with indicated OD, ignore value).
  • media: LB for 3133, and MM (i.e "minimal media") for 3145.

• Delete well_information.pngfrom repo after conversion to .csv.

• Write instructions for students on how to transcribe the well_information.png.

• Create learnr tutorial growth_curve.Rmd. Use tidyverse functions were sensible to:

  • Import the data (well information and growth data growth_data.csv) into R.
  • Join the two data tables.
  • Plot the growth curve for each well (ggplot).
  • Plot average growth curve with error bars for each treatment (i.e. media).
  • Determine the slope during exponential growth (still looking into how to do so).
  • Test if two conditions grow at significantly different speeds (unsure what statistical test is appropriate).

• Flesh out Rmd to provide context to individual steps.

• Integrate growth_data.csv as an external data set.

• Create a download button, so a local copy of datasets is saved.