cassn-mapping-R

Reproducible R-based mapping workflows for the California Sentinel Sites for Nature (CA-SSN) program — a statewide network of long-term ecological monitoring sites managed by CDFW, UCNRS, CSU, TNC, and Pepperwood.

Projects

Project	Description
projects/_reference	Canonical spatial registry of all 109 CA-SSN sites
projects/gap-maps	GAP protection status (PAD-US 4.1) mapped across all CA-SSN sites
projects/2026-04_ssn-deployment	UCNRS sentinel site deployment progress maps

Repository layout

cassn-mapping-R/
├── projects/
│   ├── _reference/              # canonical site registry
│   ├── gap-maps/                # GAP protection status analysis
│   └── 2026-04_ssn-deployment/  # UCNRS deployment progress
├── _templates/
│   └── project_skeleton/        # template for new projects
└── docs/

Each project follows the same internal structure:

<project>/
├── data_raw/   # source inputs (user-maintained or downloaded)
├── data/       # processed outputs (generated by scripts)
├── outputs/    # maps and other deliverables
└── scripts/    # R scripts and Quarto documents

Prerequisites

• R (≥ 4.1)
• Git LFS — required to pull large geospatial files tracked with LFS:

  git lfs install
  git lfs pull
  

• Quarto — required to render .qmd reports/maps

R packages are installed per-project into a local .Rlib/ directory by each project's 00_setup.R. No global package installation needed.

Conventions

• data_raw/ — raw inputs; user-maintained CSVs or downloaded data. Never overwritten by scripts.
• data/ — processed outputs generated by scripts. Safe to regenerate.
• outputs/ — final deliverables (maps, tables). Generated by scripts.
• Path detection — scripts resolve file paths whether run from the project root or the scripts/ subdirectory.
• Package isolation — each project installs packages into its own .Rlib/ to avoid conflicts.