This readme.txt file was generated on 2024-07-22


GENERAL INFORMATION

Title of Dataset: Activity patterns of nest predators vary according to latitude and habitats
		
		
Date of data collection : Nov. 2021 - Aug 2022




DATA & FILE OVERVIEW

File List: 
	- All_preds_expanded_filt.csv : List of all depredated nest with known predator identity and activity pattern
	- Predator_act_patterns.csv : List of the predator species identified through nest video surveillance, with their activity pattern and the reference of the study from which I extracted the activity pattern info (references in teh pdf file "References.pdf")
	
	- Nest_predators_logistics.Rmd : R-script used to build the logistic models 
	- Nest_predators_ordinals.Rmd : R-script used to build the ordinal models 
	- PPCheck_ordinal_models.Rmd : R-script used perform posterior predictive checks of the ordinal models
	- PostHoc_tests.Rmd : R-script used to make all post hoc tests (phylogenetic signal, spatial autocorrelation, latitude against daylight duration, refit models with the predator class as random effect)

	- BirdTree.nex : set of 1000 trees used to measure the phylogenetic signal in birds in the residuals of the logistic models
	- Mammal_Tree.nex : set of 1000 trees used to measure the phylogenetic signal in mammals in the residuals of the logistic models
	- Snakes_Tree.nex : set of 1000 trees used to measure the phylogenetic signal in snakes in the residuals of the logistic models

	- References.pdf : literature references of the studies used to determine the activity patterns of "Predator_act_patterns.csv"

METHODOLOGICAL INFORMATION

R scripts have been run with R version 4.2.2, 2023.

package versions: 

bayespot 	1.10.0
brms		2.19.0
DHARMa		0.4.6
DHARMa.helpers	0.0.1
dplyr		1.1.2
ggeffects	1.2.3
ggplot2		3.4.2
phytools	1.0-3
tidyverse	2.0.0
sp 		1.4-1


DATA-SPECIFIC INFORMATION FOR: All_preds_expanded_filt. csv

Variable List: 

FirstAuthor	Name of the first author of the study
Year		Year of publication
Study_lit	Study ID in the format First Author (Year). The list of studies with full references is provided in Appendix 1 of the main text
Study_num	Study ID in the numeric format. Note: studies with several prey species are assigned a unique study ID per prey species
Hemisphere	Norhtern (N) or Southern (S) hemisphere where the study was conducted
Lat		Absolute latitude of the field site (°)
Lat10		Centered and reduced latitude used for the model (absolute latitude centered around 40 ° and then divided by 10)
Long		Longitude (decimal degree) of the field site
Day_start	First day of camera deployement day (julian)
Day_end		Last day of camera deployement (julian)
TotCam		Total number of nests equiped with cameras
TotPredEvt	Total number of predation events independent on the camera (including camera failure, predator ID unrecognisable etc)
TotNestKnownPred	Total number of predation events recorded on camera for which the predator identity was known
Prey_English	Bird species for which the nest was monitored (English name)
Prey_Latin	Bird species for which the nest was monitored (binomial Latin name)
Prey_group	When nest cameras were not installed on one specif bird species, number of species included in teh group of birds surveyed
Prey_nest	Bird nest category (on the ground / in a bush  = 30cm - 3m / high in trees = >3 m / in a cavity)
Nest_height	Bird nest height (on the ground / in a bush  = 30cm - 3m / high in trees = >3 m) Cavity nests are grouped with nests high in trees
Prey_hab	Bird habitat (Open / Grassland / Shrubland / Forest)
Predator_sp	Predator species name (English name _ Latin name)
Pred_English	Predator species (English Name)
Pred_Latin	Predator speces Latin name (or clade whn the exact species in not known)
Predator_group	Large Ecological group to describe the predator (Mice, Squirrels, Birds, Arthropods, Owls, Mesopredators etc)
NDeprNests	Total number of depredated nests by this predator species in the given study (note: if seven nests were depredated, we find seven dupplicated lines. This column gives the number of dupplicated lines)
PropNestKnownPred	Proportion of the number of depredated nests in the given study by predators that were identifies, performed by the given predator species
PropNestPred	Proportion all depredated nests that has been depredated by the given predator 
PropNestTot	Proportion of all nests equiped with cameras that has been depredated by the given predator
Act_Pattern	Activity pattern of the given predator (Diurnal / Both or Unknown / Nocturnal)
	

DATA-SPECIFIC INFORMATION FOR: Predator_act_patterns.csv

Pred_Latin	Predator speces Latin name (or clade whn the exact species in not known)
Pred_English	Predator species (English Name)
Predator_group	Large Ecological group to describe the predator (Mice, Squirrels, Birds, Arthropods, Owls, Mesopredators etc)
Act_Pattern	Activity pattern of the given predator (Diurnal / Both or Unknown / Nocturnal)
Reference	First Author (Year) of the study from which I exrtacted teh info about the activity pattern. The list of studies with full references is provided in Appendix 2 of the main text


DATA-SPECIFIC INFORMATION FOR: BirdTree.nex

1000 trees were downloaded from the website Vertlife on 19/09/2022.

DATA-SPECIFIC INFORMATION FOR: Mammal_Tree.nex 

1000 trees were downloaded from the website Vertlife on 19/09/2022.

DATA-SPECIFIC INFORMATION FOR: Snakes_Tree.nex 

1000 trees were downloaded from the website Vertlife on 16/05/2024.