R and Tidyverse references

Network resources

Key Garrett Lab Publications



K.A. Garrett, R.I. Alcala-Briseon, K.F. Andersen, C.E. Buddenhagen, R.A. Choudhury, J.C. Fulton, J.F. Hernandez Nopsa, R. Poudel,and Y. Xing. 2018. Network Analysis: A Systems Framework to Address Grand Challenges in Plant Pathology. Annual Review of Phytopathology. First Look. Link


Andersen, K. F., C. E. Buddenhagen, P. Rachkara, R. Gibson, S. Kalule, D. Phillips, and K. A. Garrett. 2018. Modeling epidemics in seed systems to guide management strategies: The case of sweetpotato in Northern Uganda. bioRxiv: https://doi.org/10.1101/107359.

Buddenhagen, C. E., K. F. Andersen, J. C. Fulton, and K. A. Garrett. 2017. Survey methods for seed system network analysis. PeerJ Preprints 5:e2806v2801. open access link

Xing, Y., J. Hernandez Nopsa, J. Andrade-Piedra, F. Beed, G. Blomme, M. Carvajal Yepes, D. Coyne, G. Forbes, J. Kreuze, J. Kroschel, L. Kumar, J. Legg, M. Parker, E. Schulte-Geldermann, and K. A. Garrett. 2017. Global cropland connectivity: A risk factor for invasion and saturation by emerging pathogens and pests. bioRxiv: https://doi.org/10.1101/106542.

Published Journal Articles

Buddenhagen, C. E., J. F. Hernandez Nopsa, K. F. Andersen, J. Andrade-Piedra, G. A. Forbes, P. Kromann, S. Thomas-Sharma, P. Useche, and K. A. Garrett. 2017. Epidemic network analysis for mitigation of invasive pathogens in seed systems: Potato in Ecuador. Phytopathology 107:1209-1218. [open access link]

Garrett, K. A., K. F. Andersen, F. Asche, R. L. Bowden, G. A. Forbes, P. A. Kulakow, and B. Zhou. 2017. Resistance genes in global crop breeding networks. Phytopathology 107:1268-1278. open access link

Poudel, R., A. Jumpponen, D. C. Schlatter, T. C. Paulitz, B. McSpadden Gardener, L. L. Kinkel, and K. A. Garrett. 2016. Microbiome networks: A systems framework for identifying candidate microbial assemblages for disease management. Phytopathology 106:1083-1096. open access link

Sanatkar, M. R., W. N. White, B. Natarajan, C. Scoglio, and K. A. Garrett. 2016. Epidemic threshold of an SIS model in dynamic switching networks. IEEE Transactions on Systems, Man, and Cybernetics 46:345-55. link

Hernandez Nopsa, J. F., G. J. Daglish, D. W. Hagstrum, J. F. Leslie, T. W. Phillips, C. Scoglio, S. Thomas-Sharma, G. H. Walter, and K. A. Garrett. 2015. Ecological networks in stored grain: identifying key nodes for emerging pests and mycotoxins in postharvest networks. BioScience 65:985-1002. open access link

Sanatkar, M. R., C. Scoglio, B. Natarajan, S. Isard, and K. A. Garrett. 2015. History, epidemic evolution, and model burn-in for a network of annual invasion: Soybean rust. Phytopathology 105:947-955. open access link

Cox, C. M., W. W. Bockus, R. D. Holt, L. Fang, and K. A. Garrett. 2013. The spatial connectedness of plant species: Potential links for apparent competition via plant diseases. Plant Pathology 62:1195-1438. link

Garrett, K. A. 2012. Information networks for plant disease: Commonalities in human management networks and within-host signaling networks. [Invited] European Journal of Plant Pathology 133:75-88. link

Sutrave, S., C. Scoglio, S. A. Isard, J. M. S. Hutchinson, and K. A. Garrett. 2012. Identifying highly connected counties compensates for resource limitations when evaluating national spread of an invasive pathogen. PLoS ONE 7:e37793. open access link