Data and code for: Hierarchical patterns of habitat use by a nocturnal aerial insectivore revealed through passive acoustic monitoring

Data and code for recreating analyses presented in Hierarchical patterns of habitat use by a nocturnal aerial insectivore revealed through passive acoustic monitoring

Scripts:

COPO_classification_analysis_042926.R

R script used to reproduce all analyses associated with Figure 2.

COPO_Multi_Level_Occupancy_Analysis_042826R.R

R script used to recreate multi-level occupancy analysis, including making Figure 3.

COPO_Occ_Fire_Severity_Analysis.R

R script used to recreate analysis of the relationship between Common Poorwill occurence and predicted fire severity, including making Figure 5.

classification_analysis_042926.csv

 Station: location identifier

ID: unique identifier associated with each BirdNET detections

station_id: unique identifier to identify detections from all stations

focal_species_present: binary variable denoting if a given detection is a true positive (i.e., containing Common Poorwill vocalization) or a false positive (does not contain a Common Poorwill vocalization)

logit: logit score generated by BirdNET associated with each detection.

COPO_Encounter_Histories_042626.csv

year: year station was sampled

hexagon: hexagon identifier

station: station identifier

week_i_presence: binary variable denoting if Common Poorwill were detected in a given sampling week

week_i_hours: continuous variable denoting number of hours of recordings collected in a given sampling were

larch_BA: basal area of western larch, measured at the local scale

douglas_fir_BA: basal area of douglas-fir, measured at the local scale

ponderosa_BA: basal area of ponderosa pine, measured at the local scale

lodgepole_BA: basal area of lodgepole pine, measured at the local scale

grand_fir_BA: basal area of grand fir, measured at the local scale

abgrc_ba_mea: basal area of grand fir, measured at the landscape scale

juoc_ba_mean: basal area of western juniper, measured at the landscape scale

pico_ba_mean: basal area of lodgepole pine, measured at the landscape scale

pien_ba_mean: basal area of engelmann spruce, measured at the landscape scale

pipo_ba_mean: basal area of ponderosa pine, measured at the landscape scale

psme_ba_mean: basal area of douglas-fir, measured at the landscape scale

week_i_date: day of year the first day of a given survey period occured on

R Session Information

R version: 4.2.0 (2022-04-22)Platform: x86_64-apple-darwin17.0 (64-bit)Operating system: macOS Monterey 12.3.1

Matrix products: DefaultLocale:en_US.UTF-8

Attached Base Packages

stats

graphics

grDevices

utils

datasets

methods

base

Other Attached Packages

scales (1.3.0)

performance (0.11.0)

rptR (0.9.22)

tidyr (1.3.1)

caret (7.0-1)

lattice (0.22-6)

lubridate (1.9.3)

glmmTMB (1.1.3)

pROC (1.18.5)

visreg (2.7.0)

cowplot (1.2.0)

ggplot2 (3.5.2)

jagsUI (1.6.2)

stringr (1.5.1)

dplyr (1.1.4)

Loaded via Namespace (Not Attached)

Rcpp (1.0.12)

mvtnorm (1.2-4)

listenv (0.9.1)

class (7.3-22)

zoo (1.8-12)

digest (0.6.35)

ipred (0.9-15)

foreach (1.5.2)

utf8 (1.2.4)

parallelly (1.37.1)

R6 (2.6.1)

plyr (1.8.9)

stats4 (4.2.0)

hardhat (1.4.0)

coda (0.19-4.1)

pillar (1.9.0)

rlang (1.1.7)

multcomp (1.4-25)

rstudioapi (0.16.0)

minqa (1.2.6)

data.table (1.15.4)

nloptr (2.0.3)

rpart (4.1.23)

Matrix (1.4-1)

splines (4.2.0)

lme4 (1.1-29)

gower (1.0.2)

TMB (1.8.1)

munsell (0.5.1)

compiler (4.2.0)

numDeriv (2016.8-1.1)

pkgconfig (2.0.3)

globals (0.16.3)

insight (0.19.10)

nnet (7.3-19)

tidyselect (1.2.1)

tibble (3.2.1)

prodlim (2024.06.25)

codetools (0.2-20)

fansi (1.0.6)

future (1.33.2)

withr (3.0.2)

ModelMetrics (1.2.2.2)

MASS (7.3-60)

recipes (1.1.0)

grid (4.2.0)

nlme (3.1-164)

xtable (1.8-4)

gtable (0.3.5)

lifecycle (1.0.4)

magrittr (2.0.3)

estimability (1.3)

future.apply (1.11.2)

cli (3.6.5)

stringi (1.8.4)

reshape2 (1.4.4)

timeDate (4041.110)

generics (0.1.3)

vctrs (0.6.5)

boot (1.3-30)

sandwich (3.1-0)

TH.data (1.1-2)

lava (1.8.1)

iterators (1.0.14)

tools (4.2.0)

glue (1.7.0)

purrr (1.0.2)

emmeans (1.7.4-1)

parallel (4.2.0)

survival (3.6-4)

timechange (0.3.0)

colorspace (2.1-0)