Meta data for all files used or generated by the script "Veldhuis et al. - Data preparation script" Note: raw temperature data is not provided because it represents a commercial product from SAWS and can therefore not be further distributed. Note2: locations (longitude, latitude) of camera traps have been removed as it presents conservations sensitive information ###################### R scripts ######################### Veldhuis et al - Data preparation script This script has been used to process the raw data, determine activity patterns and activity overlap. Veldhuis et al - Analysis script This script uses the processed data from the Data preparation script to run the analyses and prepare figures as presented in the manuscript. ###################### Input files ######################### cam.data.csv - Input camera trapping data - Each row is an independent detection event # Variable descriptions # Study Identifier of the study site Session Identifier of the session at each study site (year-site combination) Station Identifier of the camera station (combination of two camera traps) Cameras Identifier of the camera in the pair Species Common name of the species detected by the camera DateTimeOriginal Date and time of the detection as entered by Panthera Hour Hour of detection Minute Minute of detection Time Time of detection as a ratio during the day 0 and 1 are midnight Temp_avg_day Average temperature at the camera location at the specific date of the detection Count Dummy variable used to count the number of detections for subsetting Lion.p Presence (1) or absence (0) of lion in the study site Hyaena.p Presence (1) or absence (0) of spotted hyaena in the study site Wilddog.p Presence (1) or absence (0) of wild dog in the study site Cheetah.p Presence (1) or absence (0) of cheetah in the study site Leopard.p Presence (1) or absence (0) of leopard in the study site Timeheat Relative temperature during detection species.csv - Input file with species information - Each row is a species # Variable descriptions # Scientific name Scientific name of the species Common name Common name of the species Abbreviation Abbreviation of the species name used for figures Bodymass (kg) Body mass of the species Feeding type Feeding type of the species Trophic level Trophic level of the species Database name Name of the species as given in the Panthera data file #################### Generated files ######################## act.carnivores.alltemp.RData - actmod object containing the activity pattern estimate of all large canivores combined for all study sites as used for figure 1 act.herb.alltemp.list.lion.RData - list with actmod objects containing the activity pattern estimates of each herbivore species - session combination for sites with lions present used for figure 4 act.herb.alltemp.list.nolion.RData - list with actmod objects containing the activity pattern estimates of each herbivore species - session combination for sites with lions absent used for figure 4 act.herb.list.lion.RData - list with actmod objects containing the activity pattern estimates of each herbivore species - temperature class combination for sites with lions present used for the analysis presented in figure 2 act.herb.list.nolion.RData - list with actmod objects containing the activity pattern estimates of each herbivore species - temperature class combination for sites with lions absent used for the analysis presented in figure 2 act.level.csv - output from activity level estimation for all herbivores - each row is a species-session combination session Identifier of the species - session combination act Estimate of activity level se Standard error of the activity level estimate lcl.2.5 lower 95% confidence interval estimate ucl.97.5 upper 95% confidence interval estimate act.lion.alltemp.RData - actmod object containing the activity pattern estimate of lions for all study sites combined as used for figure 4 act.lion.list.RData - list with actmod objects containing the activity pattern estimates of lions for each temperature class used for the analysis presented in figure 2 act.list.RData - list with actmod objects containing the activity pattern estimates of each herbivore species - session combination as used for the estimate of overlap with all carnivores (act.carnivores.alltemp.RData) as used for figure 1 act.list2.RData - list with actmod objects containing the activity pattern estimates of each herbivore species - session combination as used for the estimates of activity level presented in act.level2.csv overlap.estimates.all.data.csv - combination of overlap.estimates.lion.csv and overlap.estimates.nolion.csv - each row is a temperature class - species combination temp.group Average of the temperature class (for example, 15 for the temperature class between 14 and 16 degrees Celsius) species Database name of the species overlap Estimate of overlap in activity with lions lion Absence (0) or presence (1) of lions in the study sites overlap.estimates.alltemp.csv - combination of overlap.estimates.lion.alltemp.csv and overlap.estimates.nolion.alltemp.csv - each row is a species species Database name of the species overlap Estimate of overlap in activity with lions lion Absence (0) or presence (1) of lions in the study sites overlap.estimates.lion.alltemp.csv - estimates of overlap in activity pattern with lion for herbivores in sites with lion presence with combined data for all temperatures - each row is a species species Database name of the species overlap Estimate of overlap in activity with lions overlap.estimates.lion.csv - estimates of overlap in activity pattern with lion for herbivores in all sites with lion presence, split by 2 degree temperature classes - each row is a species - temperature class combination temp.group Average of the temperature class (for example, 15 for the temperature class between 14 and 16 degrees Celsius) species Database name of the species overlap Estimate of overlap in activity with lions overlap.estimates.nolion.alltemp.csv - estimates of overlap in activity pattern with lion for herbivores in sites with lion absence with combined data for all temperatures - each row is a species species Database name of the species overlap Estimate of overlap in activity with lions overlap.estimates.nolion.csv - estimates of overlap in activity pattern with lion for herbivores in all sites with lion absence, split by 2 degree temperature classes - each row is a species - temperature class combination temp.group Average of the temperature class (for example, 15 for the temperature class between 14 and 16 degrees Celsius) species Database name of the species overlap Estimate of overlap in activity with lions overlap.with.carnivores.csv - estimates of overlap in activity pattern with all carnivores for each herbivore species used for figure 1C - earch row is a species - session combination sp.session Identifier of the species - session combination overlap Estimate of overlap in activity with the combined large carnivores species Database name of the species bodymass Body mass estimate of the species