camtrapR (version 3.0.0)

surveyDashboard: Survey Dashboard for Camera Trap Data Analysis

Description

A comprehensive Shiny dashboard for analyzing camera trap survey data. The dashboard provides interactive visualization, data exploration, and analysis tools including:

• Data import from CSV files, Wildlife Insights exports, or camtrapDP format

• Interactive maps for camera locations and species detections

• Species activity pattern analysis

• Covariate extraction and analysis tools

• Single-species and community occupancy modeling

• Spatial prediction capabilities

Usage

surveyDashboard(
  CTtable = NULL,
  recordTable = NULL,
  stationCol = NULL,
  cameraCol = NULL,
  xcol = NULL,
  ycol = NULL,
  crs = NULL,
  setupCol = NULL,
  retrievalCol = NULL,
  hasProblems = FALSE,
  CTdateFormat = "ymd",
  camerasIndependent = NULL,
  speciesCol = "Species",
  recordDateTimeCol = "DateTimeOriginal",
  recordDateTimeFormat = "ymd HMS",
  timeZone = "UTC",
  exclude = NULL
)

Value

A Shiny dashboard application for camera trap survey data analysis

Arguments

CTtable

A data.frame containing the camera trap deployment information.

recordTable

A data.frame containing the camera trap records.

stationCol

The column name containing the camera trap station ID

cameraCol

The column name containing the camera trap IDs (optional, only if 2 or more cameras per station)

xcol

The column name containing the X coordinate of the camera trap station.

ycol

The column name containing the Y coordinate of the camera trap station.

crs

The coordinate reference system (CRS) of the camera trap data. Must be a valid argument to st_crs

setupCol

The column name containing the camera trap deployment date (and time).

retrievalCol

The column name containing the camera trap retrieval date (optionally date-time).

hasProblems

A logical indicating whether there are periods of cameras malfunctioning

CTdateFormat

The date format of the camera trap deployment and retrieval date and time (default: "ymd").

camerasIndependent

logical. If multiple camera per station, are they independent?

speciesCol

The column name containing the species names

recordDateTimeCol

The column name containing the record date and time

recordDateTimeFormat

The date/time format of recordDateTimeCol

timeZone

Time zone of records in recordTable

exclude

Species to be excluded from the data set

Author

Juergen Niedballa

Details

The dashboard includes several major components:

Data Import & Management:

• CSV file import with column mapping

• Wildlife Insights data import (zip, CSV, or directory)

• camtrap DP data import

• Study area import from shapefile

• Save/restore functionality for app state

• Export functionality to save data from dashboard

Data Processing:

• Flexible station filtering with multiple criteria

• Temporal record filtering with independence criteria

• Filtering species records by species name

• Automated covariate extraction from local rasters or online elevation data

• Covariate correlation analysis with visualization

• Species accumulation curves

Basic Analysis:

• Basic summary statistics

• Interactive overview and species detection maps

• Activity pattern analysis (single species and two-species overlap)

• Camera operation visualization

Occupancy Modeling:

• Basic workflow for simple model specification (linear effects)

• Support for both unmarked and ubms packages

• Automated detection history creation

• Model comparison and selection

• Response curves and spatial predictions

Community Occupancy Modeling:

• Flexible species selection with filtering

• Support for fixed, random, and independent effects

• Species-site random effects

• Effort handling on detection

• MCMC diagnostics and convergence assessment

• Species occupancy, richness and PAO predictions

Examples

if (FALSE) {

# Start the dashboard without parameters
# This opens the application with a welcome screen where data can be imported
surveyDashboard()

# Basic usage with minimal parameters

data("camtraps")
data("recordTableSample")

  surveyDashboard(
    CTtable = camtraps,
    recordTable = recordTableSample,
    xcol = "utm_x",
    ycol = "utm_y",
    crs = "epsg:32650",      # = UTM50N
    stationCol = "Station",
    setupCol = "Setup_date",
    retrievalCol = "Retrieval_date",
    CTdateFormat = "dmy"
  )
  }