employment

  • 2015-current Assistant Professor, Department of Environmental Science, Policy and Management, University of California, Berkeley.

  • 2013-2015 NSF Post-doctoral Scholar in the Department of Applied Mathematics and Statistics, University of California, Santa Cruz. Mentors: Marc Mangel, Stephan Munch

education

  • 2012 Ph.D Population Biology, University of California, Davis. Mentor: Alan Hastings

  • 2007 A.B in Physics, Princeton University, with honors and certificates in biophysics and applied and computational mathematics.

publications

  1. Milad Memarzadeh, Carl Boettiger (2018). Adaptive management of ecological systems under partial observability. Biological Conservation. 224, 9-15. doi:10.1016/j.biocon.2018.05.009. (software)

  2. Carl Boettiger (2018). From noise to knowledge: how randomness generates novel phenomena and reveals information. Ecology Letters. doi:10.1111/ele.13085 (oa, code, data)

  3. Carl Boettiger, Dirk Eddelbuettel (2018). An Introduction to Rocker: Docker Containers for R. The R Journal. https://journal.r-project.org/archive/2017/RJ-2017-065/index.html.

  4. Carl Boettiger (2017). Generating Codemeta Metadata for R Packages.
    The Journal of Open Source Software 2 (19), 454, doi:10.21105/joss.00454

  5. Getz, Marshall, Carlson, Giuggioli, Ryan, Romañach, Boettiger, Chamberlain, Larsen, D'Odorico, O'Sullivan, D. (2017). Making ecological models adequate. Ecology Letters.
    doi:10.1111/ele.12893

  6. Ben Marwick, Carl Boettiger, Lincoln Mullen (2017). Packaging data analytical work reproducibly using R (and friends). The American Statistician. doi:10.1080/00031305.2017.1375986. (oa)

  7. Hampton, Jones, Wasser, Schuldhauer, Supp, Brun, Herandez, Boettiger, Collins, Gross, Fernandez, Budden, White, Teal, Labou & Aukema. (2017) Skills and Knowledge for Data Intensive Research. BioScience. doi:10.1093/biosci/bix025. (oa)

  8. T Alex Perkins, Carl Boettiger, Benjamin L. Philips. (2016) After the games are over: life-history trade-offs drive dispersal attenuation following range expansion. Ecology and Evolution 6 (18) 6425-6434. doi:10.1002/ece3.2314. (oa, code)

  9. Carl Boettiger, Michael Bode, James N. Sanchirico, Jacob LaRiviere, Alan Hastings, and Paul Robert Armsworth. (2016) Optimal management of a stochastically varying population when policy adjustment is costly. Ecological Applications 26 (3) 808-817. doi:10.1890/15-0236. (oa, code)

  10. Carl Boettiger, Scott Chamberlain, Rutger Vos and Hilmar Lapp. (2016) RNeXML: a package for reading and writing richly annotated phylogenetic, character, and trait data in R. Methods in Ecology and Evolution. doi:10.1111/2041-210X.12469. (oa, code, software)

  11. Carl Boettiger, Scott Chamberlain, Edmund Hart, Karthik Ram. (2015) Building Software, Building Community: Lessons from the rOpenSci Project. Journal of Open Research Software 3: e8, doi:10.5334/jors.bu.

  12. Carl Boettiger. (2015) An introduction to Docker for reproducible research. ACM SIGOPS Operating Systems Review, Special Issue on Repeatability and Sharing of Experimental Artifacts. 49(1), 71-79. doi:10.1145/2723872.2723882. (oa)

  13. Carl Boettiger, Marc Mangel, Stephan Munch. (2015) Avoiding tipping points in fisheries management through Gaussian process dynamic programming. Proceedings of the Royal Society B 282(1801), 8–11. doi:10.1098/rspb.2014.1631. (oa, code, data)

  14. Carl Boettiger, Alan Hastings. (2013) No early warning signals for stochastic transitions: insights from large deviation theory. Proceedings of the Royal Society B. doi:10.1098/rspb.2013.1372. (oa, code)

  15. Carl Boettiger*, Noam Ross*, Alan Hastings. (2013) Early warning signals: The charted and uncharted territories. Theoretical Ecology doi:10.1007/s12080-013-0192-6. (oa, code)

  16. Carl Boettiger, Alan Hastings (2013). Tipping points: From patterns to predictions, Nature 493, 157–158. doi:10.1038/493157a.

  17. Carl Boettiger, Alan Hastings (2012). Early Warning Signals and the Prosecutor’s Fallacy, Proceedings of the Royal Society B 279 (1748) 4734-4739. doi:10.1098/rspb.2012.2085. (oa, code, data)

  18. Carl Boettiger, Duncan Temple Lang, Peter Wainwright (2012). rfishbase: exploring, manipulating and visualizing FishBase data from R, Journal of Fish Biology. 81 (6) 2030–2039. doi:10.1111/j.1095-8649.2012.03464.x. (oa, code, software)

  19. Carl Boettiger, Duncan Temple Lang (2012). Treebase: An R package for discovery, access and manipulation of online phylogenies, Methods in Ecology and Evolution 3 (6) 1060–1066. doi:10.1111/j.2041-210X.2012.00247x. (oa, code, software)

  20. Carl Boettiger and Alan Hastings (2012). Quantifying Limits to Detection of Early Warning for Critical Transitions, Journal of the Royal Society: Interface 9 (75) 2527-2539. doi:10.1098/rsif.2012.0125. (oa, code)

  21. Jeremy M. Beaulieu, Dwueng-Chwuan Jhwueng, Carl Boettiger and Brian O’Meara, (2012). Modeling Stabilizing Selection: Expanding the Ornstein-Uhlenbeck Model of Adaptive Evolution, Evolution 66 (8) 2369-2383. doi:10.1111/j.1558-5646.2012.01619.x (software)

  22. Carl Boettiger, Graham Coop, Peter Ralph (2012) Is your phylogeny informative? Measuring the power of comparative methods, Evolution 66 (7) 2240-51. doi:10.1111/j.1558-5646.2011.01574.x, (oa, code, data)

  23. Carl Boettiger, Jonathan Dushoff, Joshua S Weitz (2010) Fluctuation domains in adaptive evolution, Theoretical Population Biology 77 (1) 6-13. doi:10.1016/j.tpb.2009.10.003. (oa, code, data)

  24. James J. Wray, Neta A. Bahcall, Paul Bode, Carl Boettiger, Phillip Hopkins. (2006) The Shape, Multiplicity, and Evolution of Superclusters in Lambda-CDM Cosmology, The Astrophysical Journal 652 (2) 907-916. doi:10.1086/50860. (oa)

grants

  • Detecting Change in Global Biodiversity through Large Scale Network Analysis. (2018-2020) Berkeley Institute for Data Science, $67,000

  • Hellman Fellows Award (2018-2020) The Hellman Foundation. $37,600

  • Berkeley Collegium Award for Excellence in Undergraduate Education. (2018-2019) $16,867.50

  • Managing ecosystems under extreme uncertainty. (2016-03 - 2018-09) NSF XSEDE TG-DEB160003. NSF Estimated value of computing resources: $16,690

  • Reproducible and Collaborative Data Science. NSF XSEDE TG-DEB160021. NSF Estimated value of computing resources: $20,028

  • The rOpenSci Project (2015-2018, Co-PI). Helmsley Charitable Trust, award 2016PG-BRI004. $2,900,000

  • The Codemeta project (2015). National Science Foundation #ACI-1549758 165,782 USD. (proposal)

  • The rOpenSci Project, Phase II funding (2014, Co-PI). Alfred P. Sloan Foundation $300,000

  • NSF Biology Post-doc (2013-2015). National Science Foundation #DBI-1306697, $138,000 (proposal)

  • The rOpenSci Project Phase I funding (2013, Co-PI). Alfred P. Sloan Foundation $180,000

  • IIASA YSSP fellowship (2009). National Academy of Sciences, OISE-0738129, $8,000. (proposal)

  • Computational Science Graduate Fellowship (2008). Department of Energy, #DE-FG02-97ER25308, $149,000. (proposal)

book chapters

  • Carl Boettiger (2017). A Reproducible R Notebook Using Docker. In J. Kitzes, D. Turek, & F. Deniz (Eds.), The Practice of Reproducible Research: Case Studies and Lessons from the Data-Intensive Sciences (1st ed., pp. 109–117). Oakland, CA: UC Press. https://www.ucpress.edu/book.php?isbn=9780520294752

invited talks & workshops

2018

2017

2016

2015

2014

  • Invited speaker, Berkeley Initiative for Global Change Biology Workshop (student organized), UC Berkeley, CA.
  • Invited speaker, DIMACS Global Change, Berkeley CA.
  • Invited speaker, Zoology Seminar, University of Wisconsin, Madison, WI.
  • Invited speaker, ESPM Seminar, UC Berkeley, CA.
  • rOpenSci unconference, San Francisco CA.
  • Reproducible Science: Curriculum & Workflow Workshop, NESCent, Durham, NC.
  • WSSSPE 2.0 Meeting. New Orleans, LA.
  • Workflows Working Group, NCEAS, Santa Barbara, CA.

2013 & prior

awards

  • 2011 Volterra Award (Best student talk, ESA Theory Section)
  • 2007 Elected to Membership in the Society of Sigma Xi
  • 2007 Allen G. Shenstone Prize in Physics, Princeton University
  • 2007 The Class of 1870 Old English Prize, Princeton University
  • 2006 Kusaka Memorial Prize in Physics, Princeton University
  • 2006 Plasma Physics Fellow, PPPL

service

campus

  • 2018 - current. Governance Committee for Data Science Programs
  • 2017 - 2018. ESPM Remote Sensing Faculty Search, committee member & equity liaison
  • 2017 - 2018. ad hoc Data Science Degree Proposal Committee
  • 2015 - current. Berkeley Research Computing Advisory Committee

extra-campus

selected software projects

My software impact is also measured relative to other academics by depsy.org

theses

  • Carl Boettiger, David Huse (2006) Clonal Interference Models in Population Genetics. Princeton Physics Dept. doi:10.6084/m9.figshare.678305.
  • Carl Boettiger, Joshua Weitz, Simon Levin (2007) Adaptive Dynamics: Branching Phenomena and the Canonical Equation Princeton Physics Dept. doi:10.6084/m9.figshare.678306.
  • Carl Boettiger, Stephen Pacala, David Huse (2007) Ensemble Behavior from Individual Dynamics in Multispecies Forest Populations. Princeton Physics Dept. doi:10.6084/m9.figshare.678304.
  • Carl Boettiger (2012). Regime shifts in ecology and evolution (PhD Dissertation). doi:10.6084/m9.figshare.97218.

media interviews

SHA: 236500478


Profiles and Metrics

ImpactStory
Google Scholar
ORCID: 0000-0002-1642-628X



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