Vallo Varik committed May 16, 2022 1 2 3 4 5 6 7 8 9 10 11 ``````--- title: "32 drugs" output: md_document: preserve_yaml: FALSE fig_width: 7 fig_height: 5 toc: yes toc_depth: 2 --- `````` Vallo Varik committed May 16, 2022 12 ``````# Motivation `````` Vallo Varik committed May 16, 2022 13 `````` `````` Vallo Varik committed May 16, 2022 14 ``````Getting up to speed with R using dose-response for 32 drugs against 6 `````` Vallo Varik committed May 16, 2022 15 ``````bacterial strains. `````` Vallo Varik committed May 16, 2022 16 17 18 19 `````` # Tasks `````` Vallo Varik committed May 17, 2022 20 21 22 ``````In the following, we go through the most common steps in data analysis: exploration and transformation (to derive new variables). Integral to both steps is visualization i.e. making graphs. `````` Vallo Varik committed May 16, 2022 23 24 25 `````` ## Explore `````` Vallo Varik committed May 16, 2022 26 27 28 29 ``````1. Plot growth curves following raw OD in time. [Input data](doc/tasks/01_dat.csv) and expected [output plot](doc/tasks/01_out.pdf) are provided. The data is for azithromycin against _S. flexneri_ M90T from day 2022-05-04 (first replicate). _A tip: Use `facet_wrap` with `ncol = 1` argument to have different concentrations on separate plots._ `````` Vallo Varik committed May 16, 2022 30 `````` `````` Vallo Varik committed May 17, 2022 31 32 33 34 ``````2. Try again, now with [data](doc/tasks/02_dat.csv) from two days (let us plot days in different color). In addition, transform the y-axis to logarithmic scale. [Expected output](doc/tasks/02_out.pdf). _A tip: you need to turn the `Date` variable into a factor.```````