2019 Summer Fellowship Program

About
Highlights
Details
Host sites, on-site mentors and EDI fellows
Testimonials
Published data packages
Conference contributions
Featured data packages

Photo: EDI 2019 summer fellows with members of the EDI team and workshop attendees at the data publishing workshop at the University of New Mexico in Albuquerque, NM (June 4 – June 6, 2019). From left in back: Katherine Le, Vanessa Bailey, Craig Garzella, Samantha Thomas, Alexis Garretson, Susamme Grossman-Clarke (EDI), Jana Gedymin Viel, Maureen Lynch. From left front: Sylvia Kim, Georgia Titcomb, Amalia Handler, Katherine Qi, Colin Smith (EDI)

About

EDI successfully completed its second Summer Fellowship Program (10 June – 9 August 2019). We supported nine fellows at host sites located in different parts of the country, studying a large variety of ecosystems, with the host institutions differing in size and data management resources. Each fellow made a significant contribution to publishing the host site’s data for long-term data preservation (securely archived with a unique digital object identifier – doi), making the data discoverable (in the EDI repository, DataONE and by internet searches) as well as to fulfill the requirements of scientific journals and funding agencies such as the National Science Foundation. We also supported the development and publishing of a workflow for marine image analysis.

Highlights

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Details

The fellowship program began with a training workshop at the University of New Mexico in Albuquerque (NM). The training provided the essential knowledge on how to clean and format data, collect sufficient metadata for publishing, convert metadata to EML and upload and publish the data package in the EDI repository. The workshop gave the opportunity for our team to meet the fellows in person and the fellows could connect with each other. This was the basis for continued conversations via zoom meetings, emails and instant slack conversations, about data management issues encountered during the fellowship.

There were a variety of data sets that needed to be archived and also a workflow for marine image analysis to be developed and published. Many were long-term data sets, some collected by research groups, some by students and volunteers. Some of the data were very well documented, while others did not have complete provenance. For some of the data, quality analysis and control needed to be conducted. Frequently, the fellows could give productive feedback on data sampling protocols to be adjusted with the data archiving in mind.

In addition to data publishing, we worked with the fellows and the host site mentors on matching EDI’s data publishing services with the site’s data publishing needs, so that a plan for a longer-term data publishing strategy was in place when the fellows left. EDI will provide continued support to the host sites in maintaining the already archived data packages as well as in future data publishing efforts.

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Host sites, on-site mentors and EDI fellows

    1. Adirondack Ecological Center, State University of New York College of Environmental Science and Forestry: “Adirondack Long-Term Ecological Monitoring Program Data – Wildlife, Habitat and Ecosystem Fellowship.” Mentor: Stacy McNulty (smcnulty@esf.edu); Location: Newcomb, NY. Fellow: Maureen Lynch
    2. Baruch Institute of Coastal Ecology and Forest Science, Field Station, Clemson University: “Long-term forestry and wildlife dynamics data.” Mentor: Dr. Skip J. Van Bloem (skipvb@clemson.edu); Location: Georgetown, SC. Fellow: Vanessa Bailey
    3. Flathead Lake Biological Station, University of Montana: “Long-term hydrological, water quality and meteorological data from a suite of environmental sensors on a wild and scenic river floodplain in northwest Montana.” Mentor: Dr. Robert O. Hall (bob.hall@flbs.umt.edu); Location: Polson, MT. Fellow: Amalia Handler
    4. Lacawac Sanctuary and Biological Field Station: “Decades of temperature and dissolved oxygen through the depth of a pristine southern glacial lake.” Mentor: Dr. Beth Norman (beth.norman@lacawac.org); Location: Lake Ariel, PA. Fellow: Katherine Le
    5. Mohonk Preserve: “Long term phenology observations of flora and fauna of the Northern Shawangunk region.” Mentor: Dr. Elizabeth Long (elong@mohonkpreserve.org); Location: New Paltz, NY. Fellow: Alexis Garretson
    6. Northeast U.S. Shelf Long-term Ecological Research (NES-LTER), Woods Hole Oceanographic Institution: “Contributing datasets from plankton imaging systems deployed at the NES-LTER for Essential Ocean Variables and Essential Biodiversity Variables.” Mentor: Dr. Stace Beaulieu (stace@whoi.edu); Location: Woods Hole, MA. Fellow: Katherine Qi
    7. Sagehen Creek Field Station, UC Berkeley: “65+ years of meteorological data. Small mammal trapping, bird banding, fisheries, contemporary camera trap research data.” Mentor: Faerthen Felix (ffelix@berkeley.edu); Location: Truckee, CA. Fellow: Georgia Titcomb
    8. University of Wisconsin Milwaukee (UWM) Field Station in Saukville, UWM Field station in Waukesha and Greene Field Station, Carroll University “Long-term observations from Cedarburg Bog natural area, Genessee Creek and Kettle Moraine.” Mentors: Dr. Teresa Schuller (teresa.schueller@uwc.edu); Dr. Gretchen Meyer, Todd Levine; Location: Milwaukee, WI. Fellow: Jana Gedymin Viel
    9. University of Wyoming-NPS Research Station: “Greater Yellowstone Ecosystem data: pollinators, small mammals, invertebrates, vegetation and plant communities.” Mentor: Dr. Michael Dillon (Michael.Dillon@uwyo.edu); Location: Laramie, WY. Fellow: Craig Garzella

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Testimonials

“I benefited greatly from the EDI summer fellowship program. The workshop in Albuquerque exposed me to data concepts that I hadn’t thought of before and improved my knowledge of data management best practices. Learning about metadata and the Ecological Metadata Language prepared me to help the people at the Baruch Institute of Coastal Ecology and Forest Science with their data. Working with data at the field station further gave me hands-on experience with different ecological data, their nuances, and associated troubleshooting. EDI support allowed the repository upload process to occur smoothly. I’ve made so many wonderful connections with other ecologists and data managers from this program. I feel extremely fortunate for the opportunity and hope to apply the skills I learned to my own data management in the future.”

– Vanessa Bailey | Fellow at Baruch Institute of Coastal Ecology and Forest Science, Field Station –

“The Environmental Data Initiative Fellowship Program was a great opportunity to connect with ESIP partner organizations while developing my information management expertise. The fellowship opened with an in-person crash course in data publishing, including instruction on cleaning and structuring datasets, on using and creating Ecological Metadata Language, and on publishing data packages in the EDI data repository. This training, combined with the hands-on experience in data management at Mohonk Preserve and other host sites, has helped me define and explore career opportunities in environmental information management roles.” (Excerpt from “How an ESIP Output Helped me in my Summer Fellowship”).

– Alexis Garretson | Fellow at Mohonk Preserve –

“Like many field stations, we accumulate a lot of data, and we’re eager to make it accessible to a broader research community. It seems like such an insurmountable task, and starting the process of cleaning up even one dataset for publication was daunting. We were so fortunate to have a really talented, well-trained EDI Fellow, Alexis Garretson, to spend the summer with us. Alexis was able to quickly and efficiently format and publish some of our simpler datasets, and made tremendous strides cleaning up an unwieldy dataset that we’ve been struggling with for years. We’re already benefiting from her work- just this week I was able to provide the doi for one of the datasets Alexis worked on to a researcher at another institution who wants to include the data in a project he’s working on.”

– Dr. Elizabeth Long | Director of Conservation Science at Mohonk Preserve –

“The training I received through EDI’s Summer Fellowship Program has helped me to enhance my skillset in programming and data management. This past summer, I had the opportunity to attend EDI’s training workshop where I met a welcoming group of like-minded individuals and together, we learned how to use R to clean up messy data, translate metadata into EML, and publish data packages to EDI. Following the training workshop, I got to apply what I learned to formatting and publishing decades of water temperature, meteorological, and dissolved oxygen sensor data at Lacawac Sanctuary and Biological Field Station. Throughout the process, I always had support from EDI and the other fellows when I needed it. In addition, my mentor Beth at Lacawac was always more than willing to help and answer any questions I had. Through this program, I learned valuable skills in overcoming challenges associated with maintaining long-term data. In addition, this fellowship led me to continue on as a data manager for Lacawac Field Station.”

– Katherine Le | Fellow at the Lacawac Sanctuary and Biological Field Station –

“As an undergraduate student pursuing a career in research, experience in working directly with scientists and real life problems is essential. Environmental Data Initiative provided a supportive program that allowed me to engage with data scientists, engineers, and ocean biologists at Woods Hole Oceanographic Institute this summer. I was able advance my own software skills and proficiency in plankton ecology while developing a project that directly influenced many working groups. Without the great mentoring and training I received through EDI and WHOI, I would not have been able to accomplish and learn as much as I did in this short period of time. This opportunity was a unique insight into the importance of data analysis and management, and I now understand how these techniques are applicable to all fields.”

– Katherine Qi |Fellow at the Northeast U.S. Shelf Long-term Ecological Research (NES-LTER), Woods Hole Oceanographic Institution –

“This summer we had the wonderful opportunity to host Kathy Qi as an Environmental Data Initiative (EDI) Fellow. Kathy’s project was a big success for NES-LTER and is already having impact in the broader community – Kathy got to share her work in telecons with NASA, IOOS, and MBON scientists and data managers! Thank you again for this opportunity, what a great fellowship program.” Please read more in this post.

– Stace | Senior Research Specialist, Woods Hole Oceanographic Institution –

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Published data packages

Breitmeyer B. W., M. K. Gooden, M. J. Appleby, R. Ash, J. Rahn. 2019. Continuous Forest Inventory (CFI), 1970-2017, Long-term Forest Property Monitoring by State University of New York College of Environmental Science and Forestry, New York, USA. Environmental Data Initiative. https://doi.org/10.6073/pasta/5f2eb71d634b9ca1ec3c37effa557d33. Dataset accessed 9/09/2019.

Conner W. H. 2019. Monthly litterfall, monthly tree band, and annual tree growth of a South Carolina coastal wetland forest. Environmental Data Initiative. https://doi.org/10.6073/pasta/87e25c8383eb7f857f38fe532e408775. Dataset accessed 9/09/2019.

Gard R., M. Yoder-Williams. 2019. Calhoun Small Mammal Trapline Data 1950-1989. Environmental Data Initiative. https://doi.org/10.6073/pasta/c731305d47dd357b4db2905a75e4b3e6. Dataset accessed 9/09/2019.

Hargreaves B. R. 2019. Decades of water column temperature, lake level and meteorological data of Lake Lacawac, a pristine glacial lake at Lacawac Biological Field Station in the Pocono mountains, Pennsylvania USA (1992-2019). Environmental Data Initiative. https://doi.org/10.6073/pasta/e8a18d110700f2f85cbc16845f511379. Dataset accessed 9/09/2019.

Matson P. L., T. S. Bansak, A. M. Handler. 2019. Nyack Floodplain RiverNet meteorlogical and soil data in Northwest Montana, USA, 2012-2019. Environmental Data Initiative. https://doi.org/10.6073/pasta/c98d64fa6945a5b01a15409d18c299a2. Dataset accessed 9/09/2019.

McNulty S. A. 2019. White-tailed Deer Population Study, 1962-2008, Adirondack Long-Term Ecological Monitoring Program by Adirondack Ecological Center of the State University of New York College of Environmental Science and Forestry, Newcomb, New York, USA. Environmental Data Initiative. https://doi.org/10.6073/pasta/775df4c52b2441702bdc776930d9e711. Dataset accessed 9/09/2019.

McNulty S. A., R. D. Masters. 2019. Seed Production Survey, 1988-2009, Adirondack Long-Term Ecological Monitoring Program Project No. 26 by Adirondack Ecological Center of the State University of New York College of Environmental Science and Forestry, Newcomb, New York, USA. Environmental Data Initiative. https://doi.org/10.6073/pasta/f28fe27b04d069dd1f9b4de45488bd8e. Dataset accessed 9/09/2019.

Mohonk Preserve, N. Feldsine, A. Forester, A. Garretson, P. Huth, E. Long, M. Napoli, E. Pierce, D. Smiley, S. Smiley, J. Thompson. 2019. Mohonk Preserve Amphibian and Water Quality Monitoring Dataset at 11 Vernal Pools from 1931-Present. Environmental Data Initiative. https://doi.org/10.6073/pasta/864aea25998b73c5d1a5b5f36cb6583e.

Needham P. R., R. Gard, A. S. Leopold. 2019. Sagehen Creek Creel Census, 1953-1961. Environmental Data Initiative. https://doi.org/10.6073/pasta/7b6ddfc376fc341b1362e9ee3b1883e2. Dataset accessed 9/24/2019.

Petersky R. S., A. Harpold. 2019. A Long-Term Micrometeorological and Hydrological Dataset Across an Elevation Gradient in Sagehen Creek, Sierra Nevada, California. Environmental Data Initiative. https://doi.org/10.6073/pasta/f7ba0d637f25c4a118c67030daa1611a. Dataset accessed 9/24/2019.

Redmond K., J. A. Reinartz. 2019. Flowering phenology along the University of Wisconsin Milwaukee Field Station boardwalk in the Cedarburg Bog Saukville WI 1984 to 1993. Environmental Data Initiative. https://doi.org/10.6073/pasta/7837c386c7c3c5e79e6ff68a585facc1. Dataset accessed 9/09/2019.

Sayler D. 2019. Photographic documentation of forestry treatments of 77 forest plots at Sagehen Creek Field Station, 2016-2019. Environmental Data Initiative. https://doi.org/10.6073/pasta/ec298a9cdd4a7d32dcd63010ba09f32d. Dataset accessed 9/24/2019.

Sayler D., G. C. Titcomb. 2019. Temperature and Relative Humidity Time Series across 60 forest plots at Sagehen Creek Field Station, 2016-2019. Environmental Data Initiative. https://doi.org/10.6073/pasta/7f68a42a053dde3ce89915d9981b43ce. Dataset accessed 9/24/2019.

Wolfe B. T., R. Macchiavelli, S. J. Van Bloem. 2019. Tally of seeds collected in seed-rain traps and the trees around the traps in Guánica Forest, Puerto Rico. Environmental Data Initiative. https://doi.org/10.6073/pasta/3b9b472dc754c916ad229790e91e95d6. Dataset accessed 9/09/2019.

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Conference contributions

Beaulieu, S.E, Futrelle J., Qi, K., Sosik, H.M. 2019. Contributing datasets from plankton imaging systems for reuse in Essential Ocean Variables and Essential Biodiversity Variables Taxon-resolved dataset Individual-level Sample-level Metadata. Poster. OceanObs’19 conference, Honolulu, Hawaii, USA, (September 16-20, 2019)

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Mohonk Preserve, N. Feldsine, A. Forester, A. Garretson, P. Huth, E. Long, M. Napoli, E. Pierce, D. Smiley, S. Smiley, J. Thompson. 2019. Mohonk Preserve Amphibian and Water Quality Monitoring Dataset at 11 Vernal Pools from 1931-Present. Environmental Data Initiative. https://doi.org/10.6073/pasta/864aea25998b73c5d1a5b5f36cb6583e.

Conner W. H. 2019. Monthly litterfall, monthly tree band, and annual tree growth of a South Carolina coastal wetland forest. Environmental Data Initiative. https://doi.org/10.6073/pasta/87e25c8383eb7f857f38fe532e408775.

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