Stable atmospheric conditions underlie a steady pace of nocturnal bird migration in the tropics
Data files
May 06, 2025 version files 40.78 MB
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code_resubmission_20250314.zip
40.77 MB
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README.md
4.65 KB
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README.txt
1.74 KB
Abstract
Seasonal migrations between temperate and tropical latitudes have evolved repeatedly across the tree of life, but we know little about how tropical environments have shaped this life history strategy. In this first aeroecological radar study in South America, we tested whether tropical atmospheric stability leads to a more continuous pace of nocturnal bird migration across a season than the episodic pulses of migration in temperate regions. We estimated and compared the volume, flight directions, and heights of birds detected by weather radars and acoustic sensors in three regions of Colombia across four years and assessed the effects of atmospheric conditions. We found that stable tropical winds have distinct effects on migration timing depending on geographic context. Within the Andes mountains, supportive winds explain the altitudes at which birds fly, but not the volume of birds aloft on a given night, resulting in lower nightly variation in migration intensity. However, lapses in prevailing headwinds east of the Andes drove higher variation in migration intensity similar to temperate latitudes. With a reduced relationship between forecastable weather and the magnitude of nightly migration, predicting high-volume migration events to target for conservation initiatives may be more challenging in tropical climates.
Dataset DOI: 10.5061/dryad.ffbg79d5r
R source file guide
Guide to R source files used in four key analyses for "Stable atmospheric conditions underlie a steady pace of nocturnal bird migration in the tropics".
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Quantifying variation and accumulation of nightly migration traffic
Uses R source file migration_traffic4pub.R
Requires "vpi_master_co_il_noc_clean_A8.csv" to plot migration traffic accumulation and "vpi_list_allseasons_clean_noc_A8.rds" and "vpi_list_usa_noc_A8_20240919.rds" to calculate migration traffic summaries.
Output of migration traffic summaries with some manual annotation of data quality based on reviewing raw imagery in "vpi_migration_traffic_summary_A8_20240920.csv", which the script also summarizes.
Generates results for Fig. 2, Fig. 3a,b, and Table 1
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Quantifying effects of atmospheric conditions on migration across nights and altitude
Revisions of GAM analysis of vertically integrated profiles ("vpi_thin_props_clean_A8_3.csv") and full vertical profiles ("all_radars_thinned_vpts_df_CLEAN_A8_20240714.csv" of a single scan per night across the full data set
Generates results for Figure 3, Figures S4, S5 and S6, and Tables S3 and S4
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Quantifying the volume and direction of birds and wind
Comparing volumes and directions for each site, season, including making rose plots used in figures and summary stats for Table 2. Reads "all_radars_thinned_vpts_df_CLEAN_A8_20240714.csv", "vpi_thin_props_clean_A8_3.csv", and "all_radars_thinned_vpi_cfdates_CLEAN_A8.csv"
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Comparing radar and acoustic data
Compares nocturnal flight call and radar data using "vpi_thin_props_clean_A8_3.csv" and "night_summary-20231203_redacted.csv", resulting in Figures S5 and Table S3. Species IDs redacted in this version of the data due to ongoing analysis for a different paper.
File: code_resubmission_20250314.zip
Description: Zip file containing R source files and accompanying data required for analyses in the paper.
Files and variables contained in "code_resubmission_20250314.zip"
- vpi_master_co_il_noc_clean_A8.csv: Near-complete vertically integrated time series for all radars/seasons consolidated into a single data frame
- vpi_list_allseasons_clean_noc_A8.rds: RDS file containing a list of vertically integrated profiles from Colombia for each season/radar used in an analysis, separated for inspection and plotting.
- vpi_list_usa_noc_A8_20240919.rds: RDS file containing a list of vertically integrated profiles from the USA for each season/radar used in an analysis, separated for inspection and plotting.
- vpi_migration_traffic_summary_A8_20240920.csv: Migration traffic summary generated in "migration traffic4pub.R" and subsequently annotated with quality information from specting vertical profiles in the RDS files above.
- vpi_thin_props_clean_A8_3.csv: Data frame of single vertically integrated radar scans per night, used in GAM analysis to quantify effects of weather on nightly bird migration.
- all_radars_thinned_vpts_df_CLEAN_A8_20240714.csv: Data frame of full profiles from single radar scans per night, used in GAM analysis to quantify effects of weather on altitude selection.
- all_radars_thinned_vpi_cfdates_CLEAN_A8.csv: Data frame of full profiles from single radar scans per night and filtered to dates common between all Colombian radar stations to directly compare volume and directions between sites.
- night_summary-20231203_redacted.csv: Data frame of nocturnal flight call detections and sampling effort with nightly calls per hour for each species and location. However, species information has been redacted prior to publication in a different manuscript and data set.
Common variables within the above files (see Dokter et al. 2019 Ecography for details). Other variables are explained in the code
mtr: migration traffic rate, birds/km/hr
vid: vertically integrated density, birds/km2
vir: vertically integrated reflectivity, volume/km2
rtr: reflectivity traffic rate, volume/km/hr
mt: migration traffic, total estimated individual birds per time bin based on radar cross section
rt: reflectivity traffic, total estimated reflectivity volume per time bin
ff: bird ground speed
dd: bird ground direction
u: bird east/west directional component
v: bird north/south directional component
eta: reflectivity, cm2/km3
noy: night of the year
Code/software
All analyses conducted with R version 4.2.1 in R Studio Version 2024.12.0+467
