Informatics, Computing, and Cyber Systems, School of

2018

How verified (or tested) is my code? Falsification-driven verification and testing

Groce, A., Ahmed, I., Jensen, C., McKenney, P. E. & Holmes, J., Dec 1 2018, In: Automated Software Engineering. 25, 4, p. 917-960 44 p.

Research output: Contribution to journal › Article › peer-review

9 Scopus citations

Impacts of fire on sources of soil CO₂ efflux in a dry Amazon rain forest

Metcalfe, D. B., Rocha, W., Balch, J. K., Brando, P. M., Doughty, C. E. & Malhi, Y., Aug 2018, In: Global change biology. 24, 8, p. 3629-3641 13 p.

Research output: Contribution to journal › Article › peer-review

26 Scopus citations

Integrating camera imagery, crowdsourcing, and deep learning to improve high-frequency automated monitoring of snow at continental-to-global scales

Kosmala, M., Hufkens, K. & Richardson, A. D., Dec 2018, In: PLoS ONE. 13, 12, e0209649.

Research output: Contribution to journal › Article › peer-review

Open Access

16 Scopus citations

Integrating cloud-based workflows in continental-scale cropland extent classification

Massey, R., Sankey, T. T., Yadav, K., Congalton, R. G. & Tilton, J. C., Dec 15 2018, In: Remote Sensing of Environment. 219, p. 162-179 18 p.

Research output: Contribution to journal › Article › peer-review

Open Access

54 Scopus citations

Intercomparison of phenological transition dates derived from the PhenoCam Dataset V1.0 and MODIS satellite remote sensing

Richardson, A. D., Hufkens, K., Milliman, T. & Frolking, S., Dec 1 2018, In: Scientific Reports. 8, 1, 5679.

Research output: Contribution to journal › Article › peer-review

Open Access

117 Scopus citations

Later springs green-up faster: the relation between onset and completion of green-up in deciduous forests of North America

Klosterman, S., Hufkens, K. & Richardson, A. D., Sep 1 2018, In: International Journal of Biometeorology. 62, 9, p. 1645-1655 11 p.

Research output: Contribution to journal › Article › peer-review

28 Scopus citations

Linking big models to big data: Efficient ecosystem model calibration through Bayesian model emulation

Fer, I., Kelly, R., Moorcroft, P. R., Richardson, A. D., Cowdery, E. M. & Dietze, M. C., Oct 4 2018, In: Biogeosciences. 15, 19, p. 5801-5830 30 p.

Research output: Contribution to journal › Article › peer-review

Open Access

78 Scopus citations

Mapping and measuring aeolian sand dunes with photogrammetry and LiDAR from unmanned aerial vehicles (UAV) and multispectral satellite imagery on the Paria Plateau, AZ, USA

Solazzo, D., Sankey, J. B., Sankey, T. T. & Munson, S. M., Oct 15 2018, In: Geomorphology. 319, p. 174-185 12 p.

Research output: Contribution to journal › Article › peer-review

54 Scopus citations

Mapping the leaf economic spectrum acrossWest African tropical forests using UAV-Acquired hyperspectral imagery

Thomson, E. R., Malhi, Y., Bartholomeus, H., Oliveras, I., Gvozdevaite, A., Peprah, T., Suomalainen, J., Quansah, J., Seidu, J., Adonteng, C., Abraham, A. J., Herold, M., Adu-Bredu, S. & Doughty, C. E., Oct 1 2018, In: Remote Sensing. 10, 10, 1532.

Research output: Contribution to journal › Article › peer-review

Open Access

28 Scopus citations

Merging a mechanistic enzymatic model of soil heterotrophic respiration into an ecosystem model in two AmeriFlux sites of northeastern USA

Sihi, D., Davidson, E. A., Chen, M., Savage, K. E., Richardson, A. D., Keenan, T. F. & Hollinger, D. Y., Apr 15 2018, In: Agricultural and Forest Meteorology. 252, p. 155-166 12 p.

Research output: Contribution to journal › Article › peer-review

Open Access

38 Scopus citations

Model-based analysis of the impact of diffuse radiation on CO₂ exchange in a temperate deciduous forest

Lee, M. S., Hollinger, D. Y., Keenan, T. F., Ouimette, A. P., Ollinger, S. V. & Richardson, A. D., Feb 15 2018, In: Agricultural and Forest Meteorology. 249, p. 377-389 13 p.

Research output: Contribution to journal › Article › peer-review

Open Access

39 Scopus citations

Modeling Clinically Validated Physical Activity Assessments Using Commodity Hardware

Winfree, K. N. & Dominick, G., Mar 2018, In: IEEE Journal of Biomedical and Health Informatics. 22, 2, p. 335-345 11 p.

Research output: Contribution to journal › Article › peer-review

4 Scopus citations

Modeling soil CO2 production and transport with dynamic source and diffusion terms: Testing the steady-state assumption using DETECT v1.0

Ryan, E. M., Ogle, K., Kropp, H., Samuels-Crow, K. E., Carrillo, Y. & Pendall, E., May 28 2018, In: Geoscientific Model Development. 11, 5, p. 1909-1928 20 p.

Research output: Contribution to journal › Article › peer-review

Open Access

9 Scopus citations

Multidimensional trait space informed by a mechanistic model of tree growth and carbon allocation

Fell, M., Barber, J., Lichstein, J. W. & Ogle, K., Jan 2018, In: Ecosphere. 9, 1, e02060.

Research output: Contribution to journal › Article › peer-review

Open Access

5 Scopus citations

NDVI derived from near-infrared-enabled digital cameras: Applicability across different plant functional types

Filippa, G., Cremonese, E., Migliavacca, M., Galvagno, M., Sonnentag, O., Humphreys, E., Hufkens, K., Ryu, Y., Verfaillie, J., Morra di Cella, U. & Richardson, A. D., Feb 15 2018, In: Agricultural and Forest Meteorology. 249, p. 275-285 11 p.

Research output: Contribution to journal › Article › peer-review

Open Access

81 Scopus citations

Newcomers’ Barriers.. Is That All? An Analysis of Mentors’ and Newcomers’ Barriers in OSS Projects

Balali, S., Steinmacher, I., Annamalai, U., Sarma, A. & Gerosa, M. A., Dec 1 2018, In: Computer Supported Cooperative Work. 27, 3-6, p. 679-714 36 p.

Research output: Contribution to journal › Article › peer-review

69 Scopus citations

Next steps in studying the human microbiome and health in prospective studies, Bethesda, MD, May 16-17, 2017

Sinha, R., Ahsan, H., Blaser, M., Caporaso, J. G., Carmical, J. R., Chan, A. T., Fodor, A., Gail, M. H., Harris, C. C., Helzlsouer, K., Huttenhower, C., Knight, R., Kong, H. H., Lai, G. Y., Hutchinson, D. L. S., Le Marchand, L., Li, H., Orlich, M. J., Shi, J. & Truelove, A. & 7 others, Verma, M., Vogtmann, E., White, O., Willett, W., Zheng, W., Mahabir, S. & Abnet, C., Nov 26 2018, In: Microbiome. 6, 1, 210.

Research output: Contribution to journal › Article › peer-review

Open Access

21 Scopus citations

Novel measurements of fine-scale albedo: Using a commercial quadcopter to measure radiation fluxes

Levy, C. R., Burakowski, E. & Richardson, A. D., Aug 1 2018, In: Remote Sensing. 10, 8, 1303.

Research output: Contribution to journal › Article › peer-review

Open Access

24 Scopus citations

Optimizing taxonomic classification of marker-gene amplicon sequences with QIIME 2's q2-feature-classifier plugin

Bokulich, N. A., Kaehler, B. D., Rideout, J. R., Dillon, M., Bolyen, E., Knight, R., Huttley, G. A. & Gregory Caporaso, J., May 17 2018, In: Microbiome. 6, 1, 90.

Research output: Contribution to journal › Article › peer-review

Open Access

3457 Scopus citations

Post-socialist cropland changes and abandonment in Mongolia

Sankey, T. T., Massey, R., Yadav, K., Congalton, R. G. & Tilton, J. C., Sep 2018, In: Land Degradation and Development. 29, 9, p. 2808-2821 14 p.

Research output: Contribution to journal › Article › peer-review

14 Scopus citations

q2-longitudinal: Longitudinal and paired-sample analyses of microbiome data

Bokulich, N. A., Dillon, M. R., Zhang, Y., Rideout, J. R., Bolyen, E., Li, H., Albert, P. S. & Gregory Caporaso, J., Dec 2018, In: mSystems. 3, 6, e00219-18.

Research output: Contribution to journal › Article › peer-review

Open Access

191 Scopus citations

q2-sample-classifier: machine-learning tools for microbiome classification and regression

Bokulich, N. A., Dillon, M. R., Bolyen, E., Kaehler, B. D., Huttley, G. A. & Caporaso, J. G., 2018, In: Journal of Open Research Software. 3, 30, 934.

Research output: Contribution to journal › Article › peer-review

Open Access

115 Scopus citations

Qiita: rapid, web-enabled microbiome meta-analysis

Gonzalez, A., Navas-Molina, J. A., Kosciolek, T., McDonald, D., Vázquez-Baeza, Y., Ackermann, G., DeReus, J., Janssen, S., Swafford, A. D., Orchanian, S. B., Sanders, J. G., Shorenstein, J., Holste, H., Petrus, S., Robbins-Pianka, A., Brislawn, C. J., Wang, M., Rideout, J. R., Bolyen, E. & Dillon, M. & 3 others, Caporaso, J. G., Dorrestein, P. C. & Knight, R., Oct 1 2018, In: Nature Methods. 15, 10, p. 796-798 3 p.

Research output: Contribution to journal › Article › peer-review

Open Access

383 Scopus citations

Quantifying antecedent climatic drivers of tree growth in the Southwestern US

Peltier, D. M. P., Barber, J. J. & Ogle, K., Mar 2018, In: Journal of Ecology. 106, 2, p. 613-624 12 p.

Research output: Contribution to journal › Article › peer-review

Open Access

49 Scopus citations

Refinement of a theoretical trait space for North American trees via environmental filtering

Fell, M. & Ogle, K., Aug 2018, In: Ecological Monographs. 88, 3, p. 372-384 13 p.

Research output: Contribution to journal › Article › peer-review

3 Scopus citations

Remote sensing of tamarisk beetle (Diorhabda carinulata) impacts along 412 km of the Colorado River in the Grand Canyon, Arizona, USA

Bedford, A., Sankey, T. T., Sankey, J. B., Durning, L. & Ralston, B. E., Jun 2018, In: Ecological Indicators. 89, p. 365-375 11 p.

Research output: Contribution to journal › Article › peer-review

Open Access

14 Scopus citations

Seasonal patterns of nonstructural carbohydrate reserves in four woody boreal species

Furze, M. E., Jensen, A. M., Warren, J. M. & Richardson, A. D., Oct 1 2018, In: Journal of the Torrey Botanical Society. 145, 4, p. 332-339 8 p.

Research output: Contribution to journal › Article › peer-review

Open Access

6 Scopus citations

Species-level functional profiling of metagenomes and metatranscriptomes

Franzosa, E. A., McIver, L. J., Rahnavard, G., Thompson, L. R., Schirmer, M., Weingart, G., Lipson, K. S., Knight, R., Caporaso, J. G., Segata, N. & Huttenhower, C., Nov 1 2018, In: Nature Methods. 15, 11, p. 962-968 7 p.

Research output: Contribution to journal › Article › peer-review

Open Access

1011 Scopus citations

Standardized protocols and procedures can precisely and accurately quantify non-structural carbohydrates

Landhäusser, S. M., Chow, P. S., Turin Dickman, L., Furze, M. E., Kuhlman, I., Schmid, S., Wiesenbauer, J., Wild, B., Gleixner, G., Hartmann, H., Hoch, G., McDowell, N. G., Richardson, A. D., Richter, A. & Adams, H. D., Dec 1 2018, In: Tree Physiology. 38, 12, p. 1764-1778 15 p.

Research output: Contribution to journal › Article › peer-review

Open Access

192 Scopus citations

Temporal Coupling of Subsurface and Surface Soil CO₂ Fluxes: Insights From a Nonsteady State Model and Cross-Wavelet Coherence Analysis

Samuels-Crow, K. E., Ryan, E., Pendall, E. & Ogle, K., Apr 2018, In: Journal of Geophysical Research: Biogeosciences. 123, 4, p. 1406-1424 19 p.

Research output: Contribution to journal › Article › peer-review

Open Access

8 Scopus citations

The power of bots: Understanding bots in OSS projects

Wessel, M., De Souza, B. M., Steinmacher, I., Wiese, I. S., Polato, I., Chaves, A. P. & Gerosa, M. A., Nov 2018, In: Proceedings of the ACM on Human-Computer Interaction. 2, CSCW, 182.

Research output: Contribution to journal › Article › peer-review

121 Scopus citations

Tracking vegetation phenology across diverse North American biomes using PhenoCam imagery

Richardson, A. D., Hufkens, K., Milliman, T., Aubrecht, D. M., Chen, M., Gray, J. M., Johnston, M. R., Keenan, T. F., Klosterman, S. T., Kosmala, M., Melaas, E. K., Friedl, M. A. & Frolking, S., Mar 13 2018, In: Scientific Data. 5, 180028.

Research output: Contribution to journal › Article › peer-review

Open Access

344 Scopus citations

Tropical forest leaves may darken in response to climate change

Doughty, C. E., Santos-Andrade, P. E., Shenkin, A., Goldsmith, G. R., Bentley, L. P., Blonder, B., Díaz, S., Salinas, N., Enquist, B. J., Martin, R. E., Asner, G. P. & Malhi, Y., Dec 1 2018, In: Nature Ecology and Evolution. 2, 12, p. 1918-1924 7 p.

Research output: Contribution to journal › Article › peer-review

25 Scopus citations

UAV hyperspectral and lidar data and their fusion for arid and semi-arid land vegetation monitoring

Sankey, T. T., McVay, J., Swetnam, T. L., McClaran, M. P., Heilman, P. & Nichols, M., Mar 2018, In: Remote Sensing in Ecology and Conservation. 4, 1, p. 20-33 14 p.

Research output: Contribution to journal › Article › peer-review

Open Access

135 Scopus citations

Using near-infrared-enabled digital repeat photography to track structural and physiological phenology in Mediterranean tree-grass ecosystems

Luo, Y., El-Madany, T. S., Filippa, G., Ma, X., Ahrens, B., Carrara, A., Gonzalez-Cascon, R., Cremonese, E., Galvagno, M., Hammer, T. W., Pacheco-Labrador, J., Martín, M. P., Moreno, G., Perez-Priego, O., Reichstein, M., Richardson, A. D., Römermann, C. & Migliavacca, M., Aug 1 2018, In: Remote Sensing. 10, 8, 1293.

Research output: Contribution to journal › Article › peer-review

Open Access

69 Scopus citations

Variant site strain typer (VaST): Efficient strain typing using a minimal number of variant genomic sites

Furstenau, T. N., Cocking, J. H., Sahl, J. W. & Fofanov, V. Y., Jun 11 2018, In: BMC Bioinformatics. 19, 1, 222.

Research output: Contribution to journal › Article › peer-review

Open Access

4 Scopus citations

What controls variation in carbon use efficiency among Amazonian tropical forests?

Doughty, C. E., Goldsmith, G. R., Raab, N., Girardin, C. A. J., Farfan-Amezquita, F., Huaraca-Huasco, W., Silva-Espejo, J. E., Araujo-Murakami, A., da Costa, A. C. L., Rocha, W., Galbraith, D., Meir, P., Metcalfe, D. B. & Malhi, Y., Jan 2018, In: Biotropica. 50, 1, p. 16-25 10 p.

Research output: Contribution to journal › Article › peer-review

Open Access

33 Scopus citations

Who drives company-owned OSS projects: internal or external members?

Dias, L. F., Steinmacher, I. & Pinto, G., Dec 1 2018, In: Journal of the Brazilian Computer Society. 24, 1, 16.

Research output: Contribution to journal › Article › peer-review

Open Access

11 Scopus citations

Widespread seasonal compensation effects of spring warming on northern plant productivity

Buermann, W., Forkel, M., O’Sullivan, M., Sitch, S., Friedlingstein, P., Haverd, V., Jain, A. K., Kato, E., Kautz, M., Lienert, S., Lombardozzi, D., Nabel, J. E. M. S., Tian, H., Wiltshire, A. J., Zhu, D., Smith, W. K. & Richardson, A. D., Oct 4 2018, In: Nature. 562, 7725, p. 110-114 5 p.

Research output: Contribution to journal › Article › peer-review

286 Scopus citations

2017

A communal catalogue reveals Earth's multiscale microbial diversity

Earth Microbiome Project Consortium, Nov 23 2017, In: Nature. 551, 7681, p. 457-463 7 p.

Research output: Contribution to journal › Article › peer-review

Open Access

1639 Scopus citations

A dynamic landsat derived normalized difference vegetation index (NDVI) product for the conterminous United States

Robinson, N. P., Allred, B. W., Jones, M. O., Moreno, A., Kimball, J. S., Naugle, D. E., Erickson, T. A. & Richardson, A. D., Aug 1 2017, In: Remote Sensing. 9, 8, 863.

Research output: Contribution to journal › Article › peer-review

Open Access

189 Scopus citations

Assessing trait-based scaling theory in tropical forests spanning a broad temperature gradient

Enquist, B. J., Bentley, L. P., Shenkin, A., Maitner, B., Savage, V., Michaletz, S., Blonder, B., Buzzard, V., Espinoza, T. E. B., Farfan-Rios, W., Doughty, C. E., Goldsmith, G. R., Martin, R. E., Salinas, N., Silman, M., Díaz, S., Asner, G. P. & Malhi, Y., Dec 2017, In: Global Ecology and Biogeography. 26, 12, p. 1357-1373 17 p.

Research output: Contribution to journal › Article › peer-review

59 Scopus citations

Can Leaf Spectroscopy Predict Leaf and Forest Traits Along a Peruvian Tropical Forest Elevation Gradient?

Doughty, C. E., Santos-Andrade, P. E., Goldsmith, G. R., Blonder, B., Shenkin, A., Bentley, L. P., Chavana-Bryant, C., Huaraca-Huasco, W., Díaz, S., Salinas, N., Enquist, B. J., Martin, R., Asner, G. P. & Malhi, Y., Nov 2017, In: Journal of Geophysical Research: Biogeosciences. 122, 11, p. 2952-2965 14 p.

Research output: Contribution to journal › Article › peer-review

Open Access

17 Scopus citations

Climate, wildfire, and erosion ensemble foretells more sediment in western USA watersheds

Sankey, J. B., Kreitler, J., Hawbaker, T. J., McVay, J. L., Miller, M. E., Mueller, E. R., Vaillant, N. M., Lowe, S. E. & Sankey, T. T., Sep 16 2017, In: Geophysical Research Letters. 44, 17, p. 8884-8892 9 p.

Research output: Contribution to journal › Article › peer-review

Open Access

94 Scopus citations

Gross primary production responses to warming, elevated CO₂, and irrigation: quantifying the drivers of ecosystem physiology in a semiarid grassland

Ryan, E. M., Ogle, K., Peltier, D., Walker, A. P., De Kauwe, M. G., Medlyn, B. E., Williams, D. G., Parton, W., Asao, S., Guenet, B., Harper, A. B., Lu, X., Luus, K. A., Zaehle, S., Shu, S., Werner, C., Xia, J. & Pendall, E., Aug 2017, In: Global change biology. 23, 8, p. 3092-3106 15 p.

Research output: Contribution to journal › Article › peer-review

Open Access

37 Scopus citations

Herbivores increase the global availability of nutrients over millions of years

Doughty, C. E., Dec 1 2017, In: Nature Ecology and Evolution. 1, 12, p. 1820-1827 8 p.

Research output: Contribution to journal › Article › peer-review

25 Scopus citations

Microbiota Transfer Therapy alters gut ecosystem and improves gastrointestinal and autism symptoms: An open-label study

Kang, D. W., Adams, J. B., Gregory, A. C., Borody, T., Chittick, L., Fasano, A., Khoruts, A., Geis, E., Maldonado, J., McDonough-Means, S., Pollard, E. L., Roux, S., Sadowsky, M. J., Lipson, K. S., Sullivan, M. B., Caporaso, J. G. & Krajmalnik-Brown, R., 2017, In: Microbiome. 5, 1, 10.

Research output: Contribution to journal › Article › peer-review

Open Access

979 Scopus citations

Model Predictive Control With Common-Mode Voltage Injection for Modular Multilevel Converter

Dekka, A., Wu, B., Yaramasu, V. & Zargari, N. R., Mar 2017, In: IEEE Transactions on Power Electronics. 32, 3, p. 1767-1778 12 p., 7460215.

Research output: Contribution to journal › Article › peer-review

100 Scopus citations

Multi-omics analysis of periodontal pocket microbial communities pre- and posttreatment

Califf, K. J., Schwarzberg-Lipson, K., Garg, N., Gibbons, S. M., Caporaso, J. G., Slots, J., Cohen, C., Dorrestein, P. C. & Kelley, S. T., May 1 2017, In: mSystems. 2, 3, e00016.

Research output: Contribution to journal › Article › peer-review

Open Access

50 Scopus citations

Mutation reduction strategies considered harmful

Gopinath, R., Ahmed, I., Alipour, M. A., Jensen, C. & Groce, A., Sep 2017, In: IEEE Transactions on Reliability. 66, 3, p. 854-874 21 p., 7942146.

Research output: Contribution to journal › Article › peer-review

Open Access

35 Scopus citations

Informatics, Computing, and Cyber Systems, School of

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