Ph.D., Graduate Group in Ecology 2015
UC Davis Davis, CA
B.Sc., Center for Environmental Studies 2006
Brown University Providence, RI
Professional Experience
Principal Scientist, Computational Research 2019-
EcoHealth Alliance New York, NY
Senior Research Scientist 2017-2019
EcoHealth Alliance New York, NY
Disease Ecologist 2015-2017
EcoHealth Alliance New York, NY
Senior Analyst 2008-2009
GreenOrder New York, NY
Analyst 2006-2008
GreenOrder New York, NY
Selected Software Packages
citesdb: A high-performance database of shipment-level CITES trade data. (2019)
fasterize: High performance raster conversion for modern spatial data. (2018)
rchie: An R parser for ArchieML. (2018)
“Structured text, for an unstructured world.” rchie parses a free-text data format developed by the New York Times interactives team, designed to allow writers and developers to collaborate on data-driven outputs like apps and infographics. Paired with googledrive package, it allows rapid iteration and collaboration.
redoc: Reversible reproducible documents with R Markdown and Microsoft Word. (2019)
redoc is an attempt at the holy grail of mixed-workflow collaboration: it enables analysts to produce Microsoft Word douments using R Markdown that can be edited and then de-compiled into R Markdown again witout loss of information. It’s goal is for teams with different tools to be able to work together with minimal need to adopt each other’s workflows.
Courses and Workshops
Simulating Epidemiological Models with R, EcoHealth Net Workshop, George Mason University, Fairfax, Virgina, Jun 4, 2019
The EcoHealth Net program brings together scientists and STEM undergraduate and graduate students for internships and a week-long intensive workshop on One Health research.
Generalized Additive Models in R: A Free Interactive Course, (online), May 30, 2019
You can take this course online! Originally created for a commerical online learning company, I’ve ported this course to a free, interactive website that allows you to exercises live.
Fitting Non-Linear Models in R with the mgcv Package, Ecological Society of America Annual Meeting, New Orleans, Louisiana, May 10, 2018
This course is designed and run in conjucation with David Miller, Gavin Simpson, and Eric Pedersen and has run at ESA for a number of years. Lots of materials and resources available at the link!
Simulating Epidemiological Models with R, EcoHealth Net Workshop, Tufts University, Meford, Massachusettss, Jun 5, 2017
Fitting Non-Linear Models in R with the mgcv Package, Ecological Society of America Annual Meeting, New Orleans, Louisiana, May 10, 2017
Presentations
R, Coronavirus, and Pandemic Prevention, New York Open Statistical Programming Meetup, Apr 20, 2020
For the New York R Meetup, I spoke about the types of models and software virus hunters and epidemiologists use to understand emerging diseases, and how they relate to problems and models familiar to data scientists.
Building Software and Communities With Peer Review: rOpenSci, pyOpenSci, and Beyond, PyData NYC, Nov 5, 2019
One Health Surveillance Data: Sharing, Standards, and Stories, Bat One Health Research Network Meeting, Phuket, Thailand, Aug 28, 2019
This presentation kicked off the BOHRN working sessions on data sharing for synthesis and collaboration. How can we structure disease surveillance data so we can better integrate them for macro-level insights?
Epidemiological Modeling: From Basics to Artificial Intelligence, Department of Homeland Security Biosurveillance Presentation Series, Jun 19, 2019
Reproducibility in an Office world: tools for crossing the abyss, New York R Conference, May 11, 2019
Reproducibility in an Office world: a brief history of failures, R-Ladies NYC, Nov 6, 2018
Generating better macroecological data from literature: a case study of antimicrobial resistance emergence, Ecological Society of America Annual Meeting, New Orleans, Louisiana, Aug 10, 2018
DockeR for the UseR, New York Open Statistical Programming Meetup, Jul 11, 2018
An introduction to Docker with demonstration of different workflows and applications for R users. Lots of resources and links included.
The Modern R Data Package, New York R Conference, Apr 21, 2018
Nonlinear models in R: the wonderful world of mgcv, New York Open Statistical Programming Meetup, Nov 21, 2017
Better packages through peer review: lessons from rOpenSci, New York R Conference, Apr 22, 2017
Joint circulation of viral diseases in a bat population, Ecological Society of America Annual Meeting, Ft. Lauderdale., Florida, Aug 9, 2016
Optimal control of disease with individual-based models, Ecological Society of America Annual Meeting, Baltimore, Maryland, Aug 11, 2015
Modeling forest disease using a macroparasite framework, Ecological Society of America Annual Meeting, Sacramento, California, Aug 13, 2014
Publications
Daniel Nüst, Dirk Eddelbuettel, Dom Bennett, Robrecht Cannoodt, Dav Clark, Gergely Daroczi, Mark Edmondson, Colin Fay, Ellis Hughes, Lars Kjeldgaard, Sean Lopp, Ben Marwick, Heather Nolis, Jacqueline Nolis, Hong Ooi, Karthik Ram, Noam Ross, Lori Shepherd, Péter Sólymos, Tyson Lee Swetnam, Nitesh Turaga, Charlotte Van Petegem, Jason Williams, Craig Willis and Nan Xiao (2020, preprint) The Rockerverse: Packages and Applications for Containerization with R.
doi:
Greg Albery interned at EcoHealth Alliance for the end of his Ph.D. and did this excellent work using GAMs to understand patterns in what mammals carry common viruses.
Gregory F. Albery, Evan A. Eskew, Noam Ross and Kevin J. Olival (2020) Predicting the global mammalian viral sharing network using phylogeography.
doi:10.1038/s41467-020-16153-4
Colin J. Carlson, Gregory F. Albery, Cory Merow, Christopher H. Trisos, Casey M. Zipfel, Evan A. Eskew, Kevin J. Olival, Noam Ross and Shweta Bansal (2020, preprint) Climate change will drive novel cross-species viral transmission.
doi:10.1101/2020.01.24.918755
Evan A. Eskew, Allison M. White, Noam Ross, Kristine M. Smith, Katherine F. Smith, Jon Paul Rodríguez, Carlos Zambrana-Torrelio, William B. Karesh and Peter Daszak (2020) United States wildlife and wildlife product imports from 2000–2014.
doi:10.1038/s41597-020-0354-5
Hongying Li, Emma Mendelsohn, Chen Zong, Wei Zhang, Emily Hagan, Ning Wang, Shiyue Li, Hong Yan, Huimin Huang, Guangjian Zhu, Noam Ross, Aleksei Chmura, Philip Terry, Mark Fielder, Maureen Miller, Zhengli Shi and Peter Daszak (2019) Human-animal interactions and bat coronavirus spillover potential among rural residents in Southern China.
doi:10.1016/j.bsheal.2019.10.004
Noam Ross, Evan Eskew and Nicolas Ray (2019) citesdb: An R package to support analysis of CITES Trade Database shipment-level data.
doi:10.21105/joss.01483
Eric J. Pedersen, David L. Miller, Gavin L. Simpson and Noam Ross (2019) Hierarchical generalized additive models in ecology: an introduction with mgcv.
doi:10.7717/peerj.6876
Colin J. Carlson, Ian T. Kracalik, Noam Ross, Kathleen A. Alexander, Martin E. Hugh-Jones, Mark Fegan, Brett T. Elkin, Tasha Epp, Todd K. Shury, Wenyi Zhang, Mehriban Bagirova, Wayne M. Getz and Jason K. Blackburn (2019) The global distribution of Bacillus anthracis and associated anthrax risk to humans, livestock and wildlife.
doi:10.1038/s41564-019-0435-4
Evan A. Eskew, Noam Ross, Carlos Zambrana-Torrelio and William B. Karesh (2019) The CITES Trade Database is not a “global snapshot” of legal wildlife trade: Response to Can et al., 2019.
doi:10.1016/j.gecco.2019.e00631
Karthik Ram, Carl Boettiger, Scott Chamberlain, Noam Ross, Maelle Salmon and Stefanie Butland (2018) A Community of Practice Around Peer Review for Long-Term Research Software Sustainability.
doi:10.1109/mcse.2018.2882753
Richard C. Cobb, Noam Ross, Katherine J. Hayden, Catherine A. Eyre, Richard S. Dodd, Susan J. Frankel, Matteo Garbelotto and David M. Rizzo (2018) Promise and Pitfalls of Endemic Resistance for Cultural Resources Threatened by Phytophthora ramorum.
doi:10.1094/phyto-04-18-0142-r
Melinda K. Rostal, Noam Ross, Catherine Machalaba, Claudia Cordel, Janusz T. Paweska and William B. Karesh (2018) Benefits of a one health approach: An example using Rift Valley fever.
doi:10.1016/j.onehlt.2018.01.001
Jonathan Salerno, Noam Ross, Ria Ghai, Michael Mahero, Dominic A. Travis, Thomas R. Gillespie and Joel Hartter (2017) Human–Wildlife Interactions Predict Febrile Illness in Park Landscapes of Western Uganda.
doi:10.1007/s10393-017-1286-1
Richard Cobb, Peter Hartsough, Noam Ross, Janet Klein, David LaFever, Susan Frankel and David Rizzo (2017) Resiliency or restoration: management of sudden oak death before and after outbreak.
doi:10.5399/osu/fp.7.1.4021
Catherine Machalaba, Kristine M Smith, Lina Awada, Kevin Berry, Franck Berthe, Timothy A Bouley, Mieghan Bruce, Jose Cortiñas Abrahantes, Anas El Turabi, Yasha Feferholtz, Louise Flynn, Giullaume Fournié, Amanda Andre, Delia Grace, Olga Jonas, Tabitha Kimani, François Le Gall, Juan Jose Miranda, Marisa Peyre, Julio Pinto, Noam Ross, Simon R Rüegg, Robert H Salerno, Richard Seifman, Carlos Zambrana-Torrelio and William B Karesh (2017) One Health Economics to confront disease threats.
doi:10.1093/trstmh/trx039
Kevin J. Olival, Parviez R. Hosseini, Carlos Zambrana-Torrelio, Noam Ross, Tiffany L. Bogich and Peter Daszak (2017) Host and viral traits predict zoonotic spillover from mammals.
doi:10.1038/nature22975
J.H. Epstein, S.J. Anthony, A. Islam, A.M. Kilpatrick, S. Ali Khan, N. Ross, I. Smith, J. Barr, C. Zambrana-Torrelio, Y. Tao, A. Islam, P.L. Quan, K. Olival, E. Gurley, M.J. Hossain, H.E. Field, M. Fielder, T. Briese, M. Rahman, G. Crameri, L.-F. Wang, S. Luby, W.I. Lipkin and P. Daszak (2016) Nipah virus ecology and infection dynamics in its bat reservoir, Pteropus medius, in Bangladesh.
doi:10.1016/j.ijid.2016.11.056
K. Olival, K. Wiens, C. Rosenthal, A. Willoughby, C. Zambrana-Torrelio, N. Ross and P. Daszak (2016) Identifying the next Zika: An analysis of zoonotic potential in Flaviviridae.
doi:10.1016/j.ijid.2016.11.023
Sebastian J. Schreiber and Noam Ross (2016) Individual‐based integral projection models: the role of size‐structure on extinction risk and establishment success.
doi:10.1111/2041-210x.12537
Rosemary Hartman and Noam Ross (2014, preprint) Building a better frog trap: The benefits of mal-adaptive habitat choice for metapopulations with different life history strategies.
doi:10.1101/004226
Carl Boettiger, Noam Ross and Alan Hastings (2013) Early warning signals: the charted and uncharted territories.
doi:10.1007/s12080-013-0192-6
K. Fuller, D. Kling, K. Kroetz, N. Ross and J.N. Sanchirico (2013) Economics and Ecology of Open-Access Fisheries.
doi:10.1016/b978-0-12-375067-9.00114-5