Repositories list

• Gilbert_etal_2024_Ecol_A

  Public
  R

  •1•0•0•0•Updated Sep 13, 2024Sep 13, 2024

• zipkinlab.github.io

  Public
  http://zipkinlab.github.io - Code aggregation site for projects in the Zipkin lab

  HTML

  •

  Mozilla Public License 2.0

  •1•4•1•0•Updated Sep 13, 2024Sep 13, 2024

• Doser_et_al_2024_MEE

  Public
  Doser, J. W., Finley, A. O., Kéry, M., & Zipkin, E. F. (2024). spAbundance: An R package for single-species and multi-species spatially-explicit abundance models. Methods in Ecology and Evolution.

  R

  •

  MIT License

  •1•0•0•0•Updated Mar 29, 2024Mar 29, 2024

• Doser_etal_2024_GEB

  Public
  R

  •

  MIT License

  •2•0•0•0•Updated Mar 22, 2024Mar 22, 2024

• Doser_etal_2024_JABES

  Public
  R

  •

  MIT License

  •1•0•0•0•Updated Mar 22, 2024Mar 22, 2024

• Ayebare_etal_2023_ProcB

  Public
  An environmental habitat gradient and within-habitat segregation enable co-existence of ecologically similar bird species

  R

  •1•0•0•0•Updated Mar 18, 2024Mar 18, 2024

• Davis_etal_2022_EcolAndEvol

  Public
  Davis, K. L., Silverman, E. D., Sussman, A. L., Wilson, R. R., Zipkin, E. F. (2022). Errors in aerial survey count data: Identifying pitfalls and solutions. Ecology and Evolution 12:e8733.

  abundancecount-dataimperfect-detection+ 5study-designaerial-surveycounting-errornondetectionspecies-misidentification

  R

  •

  MIT License

  •1•0•0•0•Updated Mar 17, 2024Mar 17, 2024

• Zipkin_etal_2023_JAE

  Public
  Zipkin E.F. , Doser J.W., Davis C.L., Leuenberger W., Ayebare S., Davis K.L., (2023) Integrated community models: A framework combining multi-species data sources to estimate the status, trends, and dynamics of biodiversity. Journal of Animal Ecology.

  R

  •2•1•0•0•Updated Mar 9, 2024Mar 9, 2024

• Williams_etal_2024_NatComm

  Public
  Code and data for Williams, Zipkin, and Brodie (in review)

  R

  •

  MIT License

  •1•0•0•0•Updated Mar 9, 2024Mar 9, 2024

• Gilbert_etal_2024_Ecol

  Public
  R

  •1•0•0•0•Updated Mar 9, 2024Mar 9, 2024

• Farr_etal_2024_MEE

  Public
  R

  •1•0•0•0•Updated Mar 8, 2024Mar 8, 2024

• Doser_etal_2022_MEE

  Public
  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. https://doi.org/10.1111/2041-210X.13811

  R

  •1•0•0•0•Updated Nov 20, 2023Nov 20, 2023

• Doser_etal_2022_MEE_A

  Public
  Doser, J. W., Finley, A. O., Kéry, M., & Zipkin, E. F. (2022). spOccupancy: An R package for single-species, multi-species, and integrated spatial occupancy models. Methods in Ecology and Evolution. DOI: https://doi.org/10.1111/2041-210X.13897

  R

  •1•0•0•0•Updated Sep 11, 2023Sep 11, 2023

• Davis_etal_2023_BioCons

  Public
  Davis, K.L., S.P. Saunders, S. Beilke, E.R. Ford, J. Fuller, A. Landgraf, E.F. Zipkin. (2023). Breeding season management is unlikely to improve population viability of a data-deficient migratory species in decline. Biological Conservation 283:110104.

  R

  •

  MIT License

  •1•0•0•0•Updated Sep 11, 2023Sep 11, 2023

• Policies

  Public
  Lab policies and operating procedures

  15•4•0•0•Updated May 10, 2023May 10, 2023

• Zylstra_etal_2022_GCB

  Public
  Zylstra, E. R., Neupane, N., & Zipkin, E. F. (2022). Multi-season climate projections forecast declines in migratory monarch butterflies. Global Change Biology.

  R

  •2•0•0•0•Updated Sep 8, 2022Sep 8, 2022

• Farr_etal_2022_ConsBiol

  Public
  M.T. Farr, T. O’Brien, C.B. Yackulic, and E.F. Zipkin. (2022). Quantifying the conservation status and abundance trends of wildlife communities with detection-nondetection data. Conservation Biology e13934.

  community-ecologydemographic-ratesmultiple-species-modeling+ 2population-viabilityunmarked-modeling

  R

  •1•3•0•0•Updated Sep 8, 2022Sep 8, 2022

• Wright_etal_2022_EcoApps

  Public
  Wright, A. D., Grant, E. H. C., Zipkin, E. F. (2022). A comparison of monitoring designs to assess wildlife community parameters across spatial scales. Ecological Applications e2621

  R

  •

  MIT License

  •1•0•0•0•Updated Jun 9, 2022Jun 9, 2022

• Cabodevilla_etal_2022_AgEE

  Public
  Cabodevilla, X., Wright, A. D., Villanua, D., Arroyo, B., and Zipkin, E. F. (2022). The implementation of irrigation leads to declines in farmland birds. Agriculture, Ecosystems, and Environment 323 (2022) 107701. https://doi.org/10.1016/j.agee.2021.107701

  R

  •

  MIT License

  •0•0•0•0•Updated Feb 11, 2022Feb 11, 2022

• Zylstra_etal_2021_NEE

  Public
  R

  •3•3•0•0•Updated Aug 30, 2021Aug 30, 2021

• Doser_etal_2021_EcoApps

  Public
  Doser, J. W., A. S. Weed, E. F. Zipkin, K. M. Miller, and A. O. Finley. 2021. Trends in bird abundance differ among protected forests but not bird guilds. Ecological Applications 00(00):e02377. 10. 1002/eap.2377

  R

  •1•0•0•0•Updated Jun 17, 2021Jun 17, 2021

• Doser_etal_2021_MEE

  Public
  Doser, J. W., Finley, A. O., Weed, A. S., & Zipkin, E. F. (2021). Integrating automated acoustic vocalization data and point count surveys for estimation of bird abundance. Methods in Ecology and Evolution, 12(6), 1040-1049.

  R

  •3•0•0•0•Updated May 4, 2021May 4, 2021

• Blommel

  Public
  R

  •0•0•0•0•Updated Apr 22, 2021Apr 22, 2021

• Zylstra_etal_2020_USGSreport

  Public
  Zylstra, E. R., W. E. Thogmartin, M. I. Ramirez, and E. F. Zipkin. 2020. Summary of available data from the monarch overwintering colonies in central Mexico, 1976-1991. USGS Open-File Report 2020-1150.

  R

  •

  MIT License

  •1•0•0•0•Updated Mar 4, 2021Mar 4, 2021

• Farr_etal_2021_Ecol

  Public
  Farr, M. T., D. S. Green, K. E. Holekamp, and E. F. Zipkin. 2021. Integrating distance sampling and presence-only data to estimate species abundance. Ecology 102(1):e03204. 10.1002/ecy.3204

  R

  •

  MIT License

  •4•0•0•0•Updated Oct 29, 2020Oct 29, 2020

• Zipkin_etal_2020_Science

  Public
  Zipkin, E.F., DiRenzo, G.V., Ray, J.M., Rossman, S., & Lips, K.R. 2020. Tropical snake diversity collapses after widespread amphibian loss. Science 367: 814–816.

  R

  •1•1•0•0•Updated Feb 15, 2020Feb 15, 2020

• Green_etal_2019_PTRS

  Public
  Green, D.S., Farr, M.T., Holekamp, K.E., Strauss, E.D., & Zipkin, E.F. 2019. Can hyena behavior predict abundances of sympatric carnivores? Philosophical Transactions of the Royal Society 374(1781): 20180052.

  lionhyenacarnivore-conservation+ 3community-modelinghierarchical-modelingmara-serengeti-ecosystem

  4•0•0•0•Updated Jan 27, 2020Jan 27, 2020

• DiRenzo_etal_2018_EcoApps

  Public
  DiRenzo, G. V., E. Zipkin, E. C. Grant, J. A. Royle, A. V. Longo, K. Z. Zamudio, and K. R. Lips. 2018. Eco-evolutionary rescue promotes host-pathogen coexistence. Ecological Applications 28: 1948-1962.

  epidemiologydemographyimperfect-detection+ 5dail-madsen-modelamphibiansbatrachochytrium-dendrobatidischytridenzootic

  R

  •1•0•0•0•Updated Jan 27, 2020Jan 27, 2020

• Wright_etal_2020_LandEcol

  Public
  Wright, A.D., Grant, E.H.C., & Zipkin, E.F. 2020. A hierarchical analysis of habitat area, connectivity, and quality on amphibian diversity across spatial scales.

  occupancybiodiversity-patternshierarchical-scales+ 3lentic-amphibiansmacrosystems-ecologynational-capital-region

  R

  •

  MIT License

  •1•1•0•0•Updated Jan 27, 2020Jan 27, 2020

• Farr_etal_2019_EcoApps

  Public
  Farr, M.T., Green, D.S., Holekamp, K.E., Roloff, G.J., & Zipkin, E.F. 2019. Multi-species hierarchical modeling reveals variable responses of African carnivores to management alternatives. Ecological Applications 9(2): e01845.

  bayesian-analysisimperfect-detectionapex-predator+ 6carnivore-conservationcommunity-modelingdistance-samplingenforcement-of-regulationsprotected-areaserengeti-mara

  R

  •

  MIT License

  •2•0•0•0•Updated Jan 26, 2020Jan 26, 2020