Appendix L — Datasets

These datasets are included in secr. See each linked help page for details. Code for model fitting is in secr-version4.pdf. The CAPTURE software and datasets are available from a USGS archive.

Table L.1: Datasets included in secr

Dataset	Description
blackbear	Ursus americanus hair snag DNA data from Tennessee (Laufenberg et al., 2013; Settlage et al., 2008)
deermouse	Peromyscus maniculatus live-trapping data of V. H. Reid published as a CAPTURE example by Otis et al. (1978)
hornedlizard	Repeated searches of a quadrat in Arizona for flat-tailed horned lizards Phrynosoma mcallii (Royle & Young, 2008)
housemouse	Mus musculus live-trapping data of H. N. Coulombe published as a CAPTURE example by Otis et al. (1978)
ovenbird	Multi-year mist-netting study of ovenbirds Seiurus aurocapilla at a site in Maryland, USA (Dawson & Efford, 2009)
ovensong	Acoustic detections of ovenbirds (Dawson & Efford, 2009)
OVpossum	Brushtail possum Trichosurus vulpecula live trapping in the Orongorongo Valley, Wellington, New Zealand 1996–1997 (Efford & Cowan, 2004)
possum	Brushtail possum Trichosurus vulpecula live trapping at Waitarere, North Island, New Zealand April 2002 (Efford et al., 2005)
captdata	Simulated data and some fitted models (secrdemo.0, secrdemo.CL)
skink	Multi-session lizard (Oligosoma infrapunctatum and O. lineoocellatum) pitfall trapping data from Lake Station, Upper Buller Valley, South Island, New Zealand (Efford et al. in prep)
stoatDNA	Stoat Mustela erminea hair tube DNA data from Matakitaki Valley, South Island, New Zealand (Efford et al., 2009)

Dawson, D. K., & Efford, M. G. (2009). Bird population density estimated from acoustic signals. Journal of Applied Ecology, 46, 1201–1209.

Efford, M. G., Borchers, D. L., & Byrom, A. E. (2009). Density estimation by spatially explicit capture-recapture: Likelihood-based methods. In D. L. Thomson, E. G. Cooch, & M. J. Conroy (Eds.), Modeling demographic processes in marked populations (pp. 255–269). Springer.

Efford, M. G., & Cowan, P. E. (2004). Long-term population trend of trichosurus vulpecula in the orongorongo valley, new zealand. In R. L. Goldingay & S. M. Jackson (Eds.), The biology of australian possums and gliders (pp. 471–483). Surrey Beatty & Sons.

Efford, M. G., Warburton, B., Coleman, M. C., & Barker, R. J. (2005). A field test of two methods for density estimation. Wildlife Society Bulletin, 33, 731–738.

Kendeigh, S. C. (1944). Measurement of bird populations. Ecological Monographs, 14, 67–106. https://doi.org/10.2307/1961632

Laufenberg, J. S., Van Manen, F. T., & Clark, J. D. (2013). Effects of sampling conditions on DNA-based estimates of american black bear abundance: Sampling for bear population studies. Journal of Wildlife Management, 77, 1010–1020. https://doi.org/10.1002/jwmg.534

Otis, D. L., Burnham, K. P., White, G. C., & Anderson, D. R. (1978). Statistical inference from capture data on closed animal populations. Wildlife Monographs, 62.

Royle, J. A., & Young, K. V. (2008). A hierarchical model for spatial capture-recapture data. Ecology, 89, 2281–2289.

Settlage, K. E., Van Manen, F. T., Clark, J. D., & King, T. L. (2008). Challenges of DNA‐based mark‐-recapture studies of american black bears. Journal of Wildlife Management, 72, 1035–1042. https://doi.org/10.2193/2006-472