Dataset and code for the manuscript: Temperature and particle content interact to affect human norovirus and MS2 persistence in surface water

This deposit contains four elements: 1. data analysis code (.ipynb files); 2. code input files original to this study (data); 3. code input files from a previous study that the .ipynb file pulls from to generate comparison figures (data), and 4. code output files (data). The .ipynb file and dataset reproduce analysis, figures, and tables for the manuscript titled "Temperature and particle content interact to affect human norovirus and MS2 persistence in surface water." The experiments are described in the manuscript.

1. The data analysis code "HuNoV_MS2_persistence_data_analysis.ipynb" is a Jupyter Notebook in R and requires installation of an R kernel (installation instructions are available at: https://irkernel.github.io/installation/). To generate the figures and tables in the manuscript, place input files in a folder named "Data," create an empty folder named "Figures_and_tables", and execute the code in the same directory as the two created folders. These files are also available in github where the .ipynb file can be viewed directly (see "Links to related content" section).

2. The dataset includes three original code input files: human norovirus and MS2 in experimental samples and controls quantified via RT-qPCR as threshold cycle values to assess intact capsids, long genome segments (>30 bp), and short genome segments (89 bp) ("expt_5_unk_ntc.csv"), MS2 in experimental samples and controls quantified via plaque assay ("ms2.csv"), and RT-qPCR standard curves ("expt_5_std.csv")

3. The dataset includes two code input files that include previously published data [DOI: 10.25740/tr061rz9792 ] that the ipynb file pulls from to generate comparison figures: absorbance spectra for the raw and filter-sterilized water used in the experiments ("absorbance.csv") and ("kobs_import.csv")

4. The dataset contains code output files: human norovirus and MS2 in experimental samples and controls quantified via RT-qPCR and converted to units of gene copies per mL in the code ("hunov_MS2_qpcr_gcperml.csv") as well as the figures and tables generated by the code.

Columns labeled "quantity" (RT-qPCR standard curve files) are in units of gene copies per reaction and columns labeled "CT" are unitless RT-qPCR threshold cycle values.