Underlying data and code to reproduce analyses and figures used in Riddell V et al. "Viruses help shape microbiome response to polyphenol rewiring of methane-suppressed peat microcosms"

Repository for all code and data required to reproduce all figures used in "Viruses help shape microbiome response to polyphenol rewiring of methane-suppressed peat microcosms". Contains data files underlying each figure, the corresponding scripts to generate the figures, matching jupyter notebooks in HTML format, and additional input and output files for each script. All scripts to perform the main data processing workflow are numbered in order of execution within each folder, which are also numbered in order of execution. Scripts/notebooks to generate visualizations is either numbered in order of execution (independent of the main data processing workflow) or by figure number. Viral contigs (all_viral_contigs.fna.gz) and vOTUs (combined_manual_filtered.fna) used in this study, as well as vcontact3 and iphop outputs are also available in the data folder. Check the README.txt or README.xlsx file for figure-by-figure specifications. All data should be avilable, but if there are any intermediate files you'd like to access that are not available here, please reach out via the email attached to my ORCID.