Avian trait specialization is negatively associated with urban tolerance (https://doi.org/10.1111/oik.07356)

This repository contains code and data to reproduce Callaghan et al. 2020. The raw eBird data are not included here, but the summarized/aggregated urban scores are included for 256 species of European breeding birds. The R information used at the time of analysis is as follows:

sessionInfo() R version 3.5.0 (2018-04-23) Platform: x86_64-w64-mingw32/x64 (64-bit) Running under: Windows >= 8 x64 (build 9200)

Matrix products: default

locale: [1] LC_COLLATE=English_Australia.1252 LC_CTYPE=English_Australia.1252 LC_MONETARY=English_Australia.1252 [4] LC_NUMERIC=C LC_TIME=English_Australia.1252

attached base packages: [1] stats graphics grDevices utils datasets methods base

other attached packages: [1] MuMIn_1.40.4 ggtree_1.14.6 tibble_3.0.0 phytools_0.6-60 maps_3.3.0 phylosignal_1.2 [7] phylobase_0.8.4 phangorn_2.4.0 ape_5.2 lubridate_1.7.4 readr_1.3.1 scales_1.0.0
[13] ggplot2_3.3.0 purrr_0.3.2 dplyr_0.8.3

loaded via a namespace (and not attached): [1] nlme_3.1-137 gmodels_2.16.2 progress_1.2.0 httr_1.4.1
[5] numDeriv_2016.8-1 tools_3.5.0 R6_2.2.2 vegan_2.5-2
[9] spData_0.2.8.3 DBI_1.0.0 lazyeval_0.2.1 mgcv_1.8-28
[13] colorspace_1.4-1 permute_0.9-4 ade4_1.7-11 withr_2.1.2
[17] sp_1.3-1 tidyselect_0.2.5 prettyunits_1.0.2 mnormt_1.5-5
[21] compiler_3.5.0 cli_1.0.1 adephylo_1.1-11 animation_2.6
[25] expm_0.999-3 xml2_1.2.2 quadprog_1.5-5 stringr_1.4.0
[29] digest_0.6.17 pkgconfig_2.0.2 htmltools_0.4.0 plotrix_3.7-4
[33] rlang_0.4.5 rstudioapi_0.8 shiny_1.1.0 jsonlite_1.6.1
[37] combinat_0.0-8 gtools_3.8.1 spdep_0.7-7 magrittr_1.5
[41] Matrix_1.2-14 Rcpp_1.0.2 munsell_0.5.0 lifecycle_0.2.0
[45] scatterplot3d_0.3-41 stringi_1.4.3 yaml_2.2.1 clusterGeneration_1.3.4 [49] MASS_7.3-51.5 plyr_1.8.4 grid_3.5.0 parallel_3.5.0
[53] gdata_2.18.0 promises_1.0.1 crayon_1.3.4 adegenet_2.1.1
[57] deldir_0.1-15 rncl_0.8.2 lattice_0.20-35 splines_3.5.0
[61] hms_0.4.2 pillar_1.4.3 igraph_1.2.1 uuid_0.1-2
[65] boot_1.3-20 seqinr_3.4-5 stats4_3.5.0 reshape2_1.4.3
[69] fastmatch_1.1-0 LearnBayes_2.15.1 XML_3.99-0.3 glue_1.3.0
[73] RNeXML_2.1.1 BiocManager_1.30.10 treeio_1.6.2 vctrs_0.2.4
[77] httpuv_1.4.3 gtable_0.2.0 tidyr_1.0.0 assertthat_0.2.0
[81] mime_0.5 xtable_1.8-2 tidytree_0.3.1 coda_0.19-2
[85] later_0.7.2 rvcheck_0.1.7 cluster_2.0.7-1 ellipsis_0.3.0

If you have any questions about the data, analysis, or research, please reach out to Corey Callaghan ([email protected]).