CAGED: A cross-ecosystem synthesis exploring the consequences of consumer loss on community variability
Principal Investigators:
- Jamie McDevitt-Irwin
- Kelly Speare
- Sally Koerner
01_harmonize.R-- Accepts all raw data files (from "data" folder in Google Drive) and uses a column key method (see?ltertools::harmonize) to combine them into a single, standardized data table- Performs some minor wrangling necessary for coalescing synonymous columns / etc.
02_quality-control.R-- Performs more involved quality control (QC) and metric calculation03_filter.R-- Filters out rows/columns that made sense to harmonize & tidy but are likely not useful for (the current) analysis04_zero-fill.R-- Zero fills community data (necessary due to betadispersion calculation requirements)05-A_calc-beta.R-- Calculate beta dispersion at various spatial/temporal scales05-B_calc-gamma.R-- Calculate gamma richness for each experiment/dataset06_calc-mean-beta-diff.R-- Summarize beta dispersion within experiments and calculate difference between mean caged beta dispersion and mean uncaged beta dispersion07_attach-metadata.R-- Attach site-level metadata collated by group members. Also integrates beta dispersion, gamma richness, and mean difference in beta dispersion (produced by05-A,05-B, and06respectively)
- LTER Scientific Computing Team website
- NCEAS' Resources for Working Groups
- CAGED Working Group Shared Drive