Data import and included datasets | Calculating seagrass frequency occurrence | Plotting results | References

Data import and included datasets | Calculating seagrass frequency occurrence | Plotting results | References

Tampa Bay Benthic Index (TBBI) | Background | Data import and included datasets | Calculating TBBI scores | Plotting results | AZTI Marine Biotic Index (AMBI) | Calculating AMBI scores | Additional sediment data | References

Background | Data import and included datasets | Calculating metrics and TBNI scores | Plotting results | References

Background | Assessment | Report card | Report card functions | Indicator functions | References

Tampa Bay Benthic Index (TBBI) | Background | Data import and included datasets | Calculating TBBI scores | Plotting results | AZTI Marine Biotic Index (AMBI) | Calculating AMBI scores | Additional sediment data | References

Background | Data import and included datasets | Calculating metrics and TBNI scores | Plotting results | References

Background | Assessment | Report card | Report card functions | Indicator functions | References

Background | EPC reporting | Read | Analyze | Show | Manatee, Pasco, Polk, or Hillsborough County reporting | Baywide reporting | Retrieving additional FIB data | References

Background | Read | Retrieving additional water quality data | Analyze | Show | Reasonable Assurance reporting | References

Background | EPC reporting | Read | Analyze | Show | Manatee, Pasco, Polk, or Hillsborough County reporting | Baywide reporting | Retrieving additional FIB data | References

Background | Read | Retrieving additional water quality data | Analyze | Show | Reasonable Assurance reporting | References

The correction algorithm | Load the data | utilASRdrift() for programmatic correction | Arguments | Basic usage | Visualising the correction | Multiple deployment periods | editASRdrift() for interactive correction | Interface overview | Sidebar controls | Corrections log | Return value | Running the full workflow

Load the data | utilASRflag() to flag continuous data | Arguments | Basic usage | Output | QC checks explained | 1. Gross range | 2. Spike | 3. Rate of change | 4. Flatline | anlzASRflag() to visualise flag results | editASRbulk() for trimming out-of-water deployment edges | editASRflag() to review and clean data interactively | Interface overview | Selecting and removing points | Sidebar controls | DQO Settings panel | Return value | Iterative editing | Running the full workflow

The correction algorithm | Load the data | utilASRdrift() for programmatic correction | Arguments | Basic usage | Visualising the correction | Multiple deployment periods | editASRdrift() for interactive correction | Interface overview | Sidebar controls | Corrections log | Return value | Running the full workflow

Load the data | utilASRflag() to flag continuous data | Arguments | Basic usage | Output | QC checks explained | 1. Gross range | 2. Spike | 3. Rate of change | 4. Flatline | anlzASRflag() to visualise flag results | editASRbulk() for trimming out-of-water deployment edges | editASRflag() to review and clean data interactively | Interface overview | Selecting and removing points | Sidebar controls | DQO Settings panel | Return value | Iterative editing | Running the full workflow

Load the package | File paths | Continuous monitoring data | Format requirements | Checks performed | Example: triggering an error | Output format | Data quality objectives | Overlay data for editASRflag()

Load the package | File paths | Continuous monitoring data | Format requirements | Checks performed | Example: triggering an error | Output format | Data quality objectives | Overlay data for editASRflag()

Water Quality | Targets | Chlorophyll and Light Thresholds | Nutrient and Hydrologic Loading | Tidal Creeks | Fecal Indicator Bacteria | Sediment | Contaminants | Benthic Index | Fish and Wildlife | Nekton Index | Non-natives | Habitat | Seagrass Transects | Seagrass Coverage | Scoring | Continuous Example | Sediment Contaminants Example | Benthic Index Example | Smooth vs. Hard Threshold Example | Combining Scores | Visualizing Scores

Setup | Comparing Bay Segments | Trends | 2024 Snapshot by Bay Segment | How Scoring Decisions Affect Results | Nekton Index: Breakpoint Window vs. Full Range | Threshold Scoring: Smooth vs. Hard Cutoff | Category Weights

Water Quality | Targets | Chlorophyll and Light Thresholds | Nutrient and Hydrologic Loading | Tidal Creeks | Fecal Indicator Bacteria | Sediment | Contaminants | Benthic Index | Fish and Wildlife | Nekton Index | Non-natives | Habitat | Seagrass Transects | Seagrass Coverage | Scoring | Continuous Example | Sediment Contaminants Example | Benthic Index Example | Smooth vs. Hard Threshold Example | Combining Scores | Visualizing Scores

Setup | Comparing Bay Segments | Trends | 2024 Snapshot by Bay Segment | How Scoring Decisions Affect Results | Nekton Index: Breakpoint Window vs. Full Range | Threshold Scoring: Smooth vs. Hard Cutoff | Category Weights

Compute Indicators | Combine Scores | Visualize

Compute Indicators | Combine Scores | Visualize

Gaged locations | Ungaged locations | 1. Data Preparation | 2. Flow Estimation | 3. Runoff Coefficient Application | 4. Load Calculation | Combined gaged and ungaged loads | Removing point source loads from gaged NPS estimates

Gaged locations | Ungaged locations | 1. Data Preparation | 2. Flow Estimation | 3. Runoff Coefficient Application | 4. Load Calculation | Combined gaged and ungaged loads | Removing point source loads from gaged NPS estimates

Installation | Usage

Installation | Usage

Required inputs | DPS loads | IPS loads | ML loads | NPS loads | Running the assessment | Source-specific methodology | NPS/MS4 | IPS | DPS | ML | Reporting tables | Supporting datasets

Required inputs | DPS loads | IPS loads | ML loads | NPS loads | Running the assessment | Source-specific methodology | NPS/MS4 | IPS | DPS | ML | Reporting tables | Supporting datasets

Introduction | Example | Data simulation | Estimation of a spline meta-regression model | Predictions | Figures

Input data | Estimating spring loads | Spatial summary | Temporal summary

Input data | Estimating spring loads | Spatial summary | Temporal summary

Methodology | Hydraulic gradient computation | Downloading and rasterizing contours | Computing gradients | Visualising gradients | Floridan aquifer concentrations | Estimating groundwater loads | Temporal summary | References

Methodology | Hydraulic gradient computation | Downloading and rasterizing contours | Computing gradients | Visualising gradients | Floridan aquifer concentrations | Estimating groundwater loads | Temporal summary | References

Introduction | Quick Plotting Tips | Preparing data for use with the package | Full List of Adjustable Attributes | Creating a new panel type | Group-Categorized Micromaps (mmgroupedplot function) | Using the sf package with micromap

Introduction | Quick Plotting Tips | Preparing data for use with the package | Full List of Adjustable Attributes | Creating a new panel type | Group-Categorized Micromaps (mmgroupedplot function) | Using the sf package with micromap

References

Installation | Usage | Sea level Data | Sea Level Rise Scenarios | References

References

Installation | Usage | Sea level Data | Sea Level Rise Scenarios | References

Installation | Usage | Changing the default arguments | Equation optimization length | Starting value | Missing values | Changing priors | References

Basic usage | Trend testing | Evaluating changes between time periods | Evaluating seasonal changes over time | References

Basic usage | Trend testing | Evaluating changes between time periods | Evaluating seasonal changes over time | References

Background | Datasets | Report card summary | Report card plot | References

Background | Datasets | Report card summary | Report card plot | References

Marcus W. Beck, [email protected] | Installing the package | Using the package

Usage

Brief description of WRTDS for tidal waters | Using the functions | Fitting a WRTDS tidal model | Evaluating the results | Selecting window widths