ReadMe for 'DECOMPOSING PARASITE FITNESS REVEALS THE BASIS OF SPECIALIZATION IN A TWO-HOST, TWO-PARASITE SYSTEM' by Lievens et al. Decomposing parasite fitness reveals the basis of specialization in a two-host two-parasite system 2018-06-25 This readme file describes the data files and supplementary files accompanying the above publication. For any further queries please contact eva.j.lievens@gmail.com The analysis files in this package are R Markdown scripts (.rmd, http://rmarkdown.rstudio.com/). R Markdown is a free extension to R that allows easy commenting of code. If the user does not wish to use this program, the code can be opened as a text file and chunks (sections between ``` marks) analysed as regular R code. The following files are included: -EXPERIMENT 1- 1) "experiment 1 - analysis.rmd" This R Markdown script reproduces the analysis of experiment 1, as described in the paper. The comments should make it self explanatory. 2) "experiment 1 - data.zip" This folder contains all the datafiles necessary to analyse experiment 1, i.e.: a) "experiment 1 - dose-response data.csv" This is the main data resulting from experiment 1, using the surviving individuals at the end of the experiment. Its variables are described in the "Prep" section of the analysis file. b) "experiment 1 - mortality data.csv" This is the data used to check for dose-dependent mortality in experiment 1. Its variables are described in the "Prep" section of the analysis file. -EXPERIMENT 2- 3) "experiment 2 - analysis.rmd" This R Markdown script reproduces the analysis of experiment 2, as described in the paper. The comments should make it self explanatory. 4) "experiment 2 - data.zip" This folder contains all the datafiles necessary to analyse experiment 2, i.e.: a) "experiment 2 - individuals.csv" This is the main dataset tracking host individuals. Its variables are described in the "Prep/Import data" section of the analysis file. b) "experiment 2 - mortality PCRs.csv" Each host individual was tested for the presence of microsporidian DNA after it died; this dataset contains those results. Its variables are described in the "Prep/Import data" section of the analysis file. c) "experiment 2 - reproduction.csv" This dataset contains the number of offspring produced by each host individual throughout the experiment. Its variables are described in the "Prep/Import data" section of the analysis file. d) "experiment 2 - spore counts.csv" This dataset contains the spore counts, as obtained from fecal samples of host individuals throughout the experiment. Its variables are described in the "Prep/Import data" section of the analysis file. d) "experiment 2 - transmission test.csv" This dataset gives the results of the transmission assay. Its variables are described in the "Prep/Import data" section of the analysis file.