hbefTrends {spOccupancy}

Detection-nondetection data of 12 foliage gleaning bird species from 2010-2018 in the Hubbard Brook Experimental Forest

Description

Detection-nondetection data of 12 foliage gleaning bird species in 2010-2018 in the Hubbard Brook Experimental Forest (HBEF) in New Hampshire, USA. Data were collected at 373 sites over three replicate point counts each of 10 minutes in length, with a detection radius of 100m. Some sites were not visited for all three replicates. The 12 species included in the data set are as follows: (1) AMRE: American Redstart; (2) BAWW: Black-and-white Warbler; (3) BHVI: Blue-headed Vireo; (4) BLBW: Blackburnian Warbler; (5) BLPW: Blackpoll Warbler; (6) BTBW: Black-throated Blue Warbler; (7) BTNW: BLack-throated Green Warbler; (8) CAWA: Canada Warbler; (9) MAWA: Magnolia Warbler; (10) NAWA: Nashville Warbler; (11) OVEN: Ovenbird; (12) REVI: Red-eyed Vireo.

Usage

data(hbefTrends)

Format

hbefTrends is a list with four elements:

y: a four-dimensional array of detection-nondetection data with dimensions of species (12), sites (373), years (9), and replicates (3).

occ.covs: a list of potential covariates for inclusion in the occurrence portion of an occupancy model. There are two covariates: elevation (a site-level covariate), and years (a temporal covariate. ) det.covs: a list of two numeric three-dimensional arrays with dimensions corresponding to sites (373), years (9), and replicates (3). The first element is the day of year when the survey was conducted for a given site, year, and replicate. The second element is the time of day when the survey was conducted.

coords: a numeric matrix with 373 rows and two columns containing the site coordinates (Easting and Northing) in UTM Zone 19. The proj4string is "+proj=utm +zone=19 +units=m +datum=NAD83".

Source

Rodenhouse, N. and S. Sillett. 2019. Valleywide Bird Survey, Hubbard Brook Experimental Forest, 1999-2016 (ongoing) ver 3. Environmental Data Initiative. doi:10.6073/pasta/faca2b2cf2db9d415c39b695cc7fc217 (Accessed 2021-09-07)

References

Doser, J. W., Leuenberger, W., Sillett, T. S., Hallworth, M. T. & Zipkin, E. F. (2022). Integrated community occupancy models: A framework to assess occurrence and biodiversity dynamics using multiple data sources. Methods in Ecology and Evolution, 00, 1-14. doi:10.1111/2041-210X.13811