# Camera Trap Data Management and Preparation of Occupancy and Spatial Capture-Recapture Analyses

## Documentation for package ‘camtrapR’ version 2.3.0

- DESCRIPTION file.
- User guides, package vignettes and other documentation.
- Package NEWS.

## Help Pages

camtrapR-package | Overview of the functions in the camtrapR package
activityDensity | Plot kernel density estimation of single-species activity
activityHistogram | Plot histogram of single-species activity
activityOverlap | Plot overlapping kernel densities of two-species activities
activityRadial | Radial plots of single-species activity
addCopyrightTag | Write a copyright tag into JPEG image metadata
addToPath | Add a directory to PATH temporarily
appendSpeciesNames | Add or remove species names from JPEG image filenames
cameraOperation | Create a camera trap station operation matrix
camtrapR | Overview of the functions in the camtrapR package
camtraps | Sample camera trap station information
camtrapsMultiSeason | Sample multi-season camera trap station information
checkSpeciesIdentification | Consistency check on species image identification
checkSpeciesNames | Check species names against the ITIS taxonomic database
commOccu-class | commOccu objects
communityModel | Create a community (multi-species) occupancy model for JAGS or Nimble
createSpeciesFolders | Create species directories for species identification
createStationFolders | Create camera trap station directories for raw camera trap images
detectionHistory | Species detection histories for occupancy analyses
detectionMaps | Generate maps of observed species richness and species presences by station
exifTagNames | Show Exif metadata of JPEG images or other image or video formats
filterRecordTable | Filter species record table for temporal independence
fit-method | Fit a community (multi-species) occupancy model
fixDateTimeOriginal | Fix DateTimeOriginal Exif metadata tag in Reconyx Hyperfire cameras
getSpeciesImages | Collect all images of a species
imageRename | Copy and rename images based on camera trap station ID and creation date
OCRdataFields | Optical character recognition (OCR) from data fields in digital images
plot_coef | Plot effect sizes of covariates in community occupancy model
plot_coef-method | Plot effect sizes of covariates in community occupancy model
plot_effects | Plot Marginal Effects of Covariates
plot_effects-method | Plot Marginal Effects of Covariates
predict | Predictions from community occupancy models
predict-method | Predictions from community occupancy models
recordTable | Generate a species record table from camera trap images and videos
recordTableIndividual | Generate a single-species record table with individual identification from camera trap images or videos
recordTableIndividualSample | Sample single-species record table with custom metadata from camera trap images
recordTableIndividualSampleMultiSeason | Sample single-species multi-season record table with custom metadata from camera trap images
recordTableSample | Sample species record table from camera trap images
recordTableSampleMultiSeason | Sample multi-season species record table from camera trap images
spatialDetectionHistory | Generate a 'capthist' object for spatial capture-recapture analyses from camera-trapping data
summary-method | Summarize community occupancy model
surveyDashboard | Shiny dashboard for summarizing and analyzing camera trap survey data
surveyReport | Create a report about a camera trapping survey and species detections
timeShiftImages | Apply time shifts to JPEG image metadata
timeShiftTable | Sample camera trap time shift table
writeDateTimeOriginal | Write values to DateTimeOriginal tag in image metadata