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

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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