A small subset of soil_phylo_sample used for examples. A data frame made from the `phyloseq` object with only sample data and counts for OTU 1.
soil_phylum_small_otu1A phyloseq-class experiment-level object with sample data and OTU 1 counts.
sample data with the following covariates:
Plants, values 0 and 1. Index for different plants
Day, values 0 (initial sampling point), 1 (12 days after treatment additions), and 2 (82 days after treatment additions). Index for different days of measurement
Amdmt, values 0 (no additions), 1 (biochar additions), and 2 (fresh biomass additions). Index for different soil additives.
DayAmdmt, values 00, 01, 02, 10, 11, 12, 20, 21, and 22. A single index for the combination of Day and Amdmt with Day as the first digit and Amdmt as the second digit.
ID, values A, B, C, D, and F. Index for different soil plots.
W, counts for OTU1 in each sample. This OTU corresponds with the phylum Proteobacteria.
M, the sequencing depth for each sample.
Whitman, T., Pepe-Ranney, C., Enders, A., Koechli, C., Campbell, A., Buckley, D. H., Lehmann, J. (2016). Dynamics of microbial community composi-tion and soil organic carbon mineralization in soil following addition of pyrogenic andfresh organic matter. The ISME journal, 10(12):2918. <doi: 10.1038/ismej.2016.68>.