4. Expected Output

Interpreting Output

After the pipeline completes, you'll find several files and directories in your output folder (--outdir). These include:

• SplineResults/: Contains the results of the spline modeling, including .Rds files and plots (.png files).
• EstIRRCatch_summary.csv: A summary CSV file combining the estimation results from the spline models.
• Logs: Detailed logs of the pipeline execution for troubleshooting.

Output Files and Directories

• SplineResults/: Directory containing:

• *.Rds: R data files resulting from the spline modeling.

• *.png: Plots generated from the modeling.

• EstIRRCatch_summary.csv: A combined CSV file summarizing the estimation of Incidence Rate Ratios (IRR) by catchment area.

Understanding the Results

• Spline Modeling Results: The .Rds files can be loaded into R for further analysis or visualization.
• Plots: The .png files provide visual representations of the spline models, trends, and other relevant analyses.
• Summary CSV: EstIRRCatch_summary.csv contains aggregated results, which can be opened with any spreadsheet software or analyzed programmatically.