Machine Learning Techniques Help Philosopher Build an App for Logic Education

Lok Chan

Philosophy doctoral student Lok Chan is writing a dissertation on learning and testing through the lenses of philosophy and statistics. To develop the skills he needed to produce a web-based application for logic education, he sought training in machine learning.

Mentored by Kevin Hoover, Chan was among 18 Duke University students who received Graduate Student Training Enhancement Grants (GSTEG) in 2017-2018 from the Office of the Vice Provost for Interdisciplinary Studies for training beyond their core disciplines. He provided an update on his GSTEG experience.

I received the Graduate Training Enhancement Grant to enroll in Udacity’s Machine Learning Nanodegree Program over the summer of 2017.  What I learned has had a tremendous impact on both my interest as a researcher and as an educator.

This program provides practice-oriented training in various machine learning techniques, such as supervised learning, reinforcement learning, and convolutional neural networks. This practical experience allows me to learn about scientific reasoning in ways not possible through my traditional philosophical training.

Using these techniques, I have made substantial improvement to the logic education application I have previously developed. Initially, my application could only generate logic problems in a purely random manner. With machine learning techniques, however, I have devised a model in which a student’s response could be used as a basis for generating a problem that addresses her particular strengths and weaknesses.

Chan's logic app

About GSTEG

This internal funding mechanism from the Office of the Vice Provost for Interdisciplinary Studies encourages doctoral and master’s students to step away from their core research and training to acquire skills, knowledge, or co-curricular experiences that will give them new perspectives on their research agendas. Graduate Student Training Enhancement Grants are intended to deepen preparation for academic positions and other career trajectories.

  • Read other GSTEG updates from the 2017-18 grantees.
  • See who received GSTEG grants for 2018-19.

A Deep Dive into Blubber Samples Yields a Novel Method to Study Whales

Jillian Wisse

Ecology doctoral student Jillian Wisse studies a species of pilot whale that dives especially deep. To learn more about how they relate to their environment, she sought specialized training at the National Institute of Standards and Technology’s Hollings Marine Laboratory in Charleston, South Carolina.

Wisse was among 18 Duke University students who received Graduate Student Training Enhancement Grants (GSTEG) in 2017-2018 from the Office of the Vice Provost for Interdisciplinary Studies for training beyond their core disciplines. Her faculty mentor was Douglas Nowacek.

She provided an update on her GSTEG experience.


My dissertation work explores the physiology of a deep-diving whale species. To understand how these animals relate to their environment, I am collecting small tissue samples to analyze for a suite of hormones, which can tell us about the reproductive state, sexual maturity, and stress of animals. With the Graduate Student Training Enhancement Grant, I developed a novel method for the analysis of these target molecules.

Jillian Wisse's focal species

To complete this work, I traveled to the National Institute of Standards and Technology (NIST), where I worked with a leading endocrine researcher to learn hormone extraction and tandem mass spectrometry. With her guidance, I developed a novel analysis method, which will allow scientists to conduct more efficient and comprehensive hormone analyses of these tissue samples, aiding efforts to understand the behavior and physiology of these difficult-to-access animals.

Through this opportunity, I gained experience with a technique at the forefront of my field, began a collaboration with an influential mentor, and developed the backbone of my dissertation work.

Hollings Marine Lab

About GSTEG

This internal funding mechanism from the Office of the Vice Provost for Interdisciplinary Studies encourages doctoral and master’s students to step away from their core research and training to acquire skills, knowledge, or co-curricular experiences that will give them new perspectives on their research agendas. Graduate Student Training Enhancement Grants are intended to deepen preparation for academic positions and other career trajectories.

  • Read other GSTEG updates from the 2017-18 grantees.
  • See who received GSTEG grants for 2018-19.

 

Photos courtesy of Jillian Wisse: In the field; focal species; Hollings Marine Lab, where NIST is housed

Duke Students Investigate Barriers to Sanitation Access in Lowndes County, Alabama

The D-SIGN team with faculty and community partners in Alabama

Duke University graduate students Emily Meza (M.E.M.), Katy Hansen (Ph.D., Environmental Policy), and Ryan Juskus (Ph.D., Religion) sought to contribute to a Emily Meza, Katy Hansen, and Ryan Juskuscommunity-based research partnership between the Duke Human Rights Center and the Alabama Center for Rural Enterprise to improve wastewater treatment in Lowndes County, Alabama.

Guided by their faculty sponsors Erika Weinthal and Elizabeth Albright, they received a Duke Support for Interdisciplinary Graduate Networks (D-SIGN) grant for 2017-2018. Here are excerpts from their year-end report.


The latest American Community Survey found that 630,000 U.S. households do not have a toilet or running water. Addressing the complex challenges undergirding lack of access—from limited technology to lack of funding and institutional shortcomings—require interdisciplinary efforts.

In close collaboration with the Alabama Center for Rural Enterprise (ACRE), our D-SIGN team, comprised of doctoral and professional students from the Duke Divinity School, Law School, Nicholas School of the Environment, and Sanford School of Public Policy, focused on improving access to wastewater treatment in Lowndes County, Alabama, where up to 90% of households have either no or inadequate access to sanitation.

The project started with a site visit in July 2017. We hosted community meetings in Lowndes County to discuss the initial research and diagnosis the problem, and visited several homes without adequate access to sanitation. We decided to focus on the interlaced physical and financial barriers to sanitation access

Household Sanitation Conditions

Team looking at the lagoon near Hayneville

Emily Meza spent the year assessing likely predictors of seeing raw sewage on the ground, as well as broadly defining the scale and scope of the struggles with wastewater treatment faced by Lowndes County. Her analysis relies on an EPA-funded community survey conducted by ACRE and community volunteers in 2011-2012.

Approximately 2,450 households (~56% of households county-wide) were interviewed in person about sanitation conditions in their home and on their property. Four main types of wastewater disposal methods were identified—full sewer connection, settling tank connected to sewer, septic systems, and straight pipes (lack of any treatment). While 92% of the county reported being served by a municipal drinking water utility, only 21.8% were served by a sewer system. As expected, residents that used straight pipes to dispose of their wastewater were ~36 times more likely than residents connected to a full sewer to report raw sewage on the ground. Additionally, those whose septic or settling tanks were not operating properly were ~35 times more likely to see raw sewage. Improving sanitation and reducing exposure to raw sewage in Lowndes County requires addressing both private household needs as well as the municipal utilities with failing infrastructure.

Emily presented her results with the ACRE team to congressional staffers and industry representatives in Washington, D.C. in March 2018.

Kelsey Rowland, Carly Osborne, and Emily Meza at the stakeholder meeting in Washington

It was very encouraging to be in a room with thirty-plus people all working on similar issues. We heard from scholars at Baylor, Columbia, and Michigan State, as well as the nonprofit and private sector stakeholders. While my research focused on Lowndes County, hearing from so many viewpoints impressed how widespread sanitation issues are in both the US and worldwide. Multiple congressional staffers also attended the full day workshop, and a month later Senator Cory Booker introduced a bipartisan bill to the Senate to address these issues. While Catherine had been working with Senator Booker for a while, our stakeholder meeting helped get a critical mass of interest around the problems. Having played an active role in that was significant and encouraging experience, even if there remains much work ahead.

—Emily Meza, second-year Master of Environmental Management student

Funding for Wastewater Treatment Infrastructure

Katy Hansen and Danielle Purifoy at the AAG

Katy Hansen worked closely with Bryce Cracknell (Trinity ’18) and five other undergraduates to track the sources and distribution of federal and state funding for wastewater treatment infrastructure. This team collected information on funding from agencies’ websites, compiled and cleaned the data, and are in the process of writing an article and policy brief about the distribution of federal funding for wastewater infrastructure in Alabama.

This work will help determine whether the percentage of nonwhite or low-income residents influences the likelihood of applying for and receiving financial assistance. Eligibility criteria, application and recipient requirements, and insufficient funding act as barriers to low-resource communities seeking funding. Katy presented this work with Danielle Purifoy at the American Associations of Geographers meeting in New Orleans in April 2018.

Individuals’ Relationship to Nature

Ryan Juskus researches how people conceptualize and act on their relation to nature in contexts where social marginalization, religion, and fossil fuels are key factors. Participating in the project helped Ryan with his dissertation research on north Birmingham by improving his understanding of how race and history intersect with environmental concerns in Alabama.

His trips to Lowndes County helped him make connections between the Lowndes work and Equal Justice Initiative’s (EJI) effort to re-narrate the racial history of the region from slavery to mass incarceration. ACRE’s work dovetails well with and fleshes out EJI’s work by adding the environmental side of the story. Ryan has tried to highlight the humanities aspects of the Duke-ACRE partnership by pointing to the ways that the wastewater issue is more than technical and political in nature. It is also a deeply human story. Ryan hopes to add ethics and religion analyses to interdisciplinary research projects in environmental justice.

As a humanities scholar on a project driven by social sciences and focused primarily on technical and political solutions to the wastewater challenges in Lowndes County, I joined the team without a clear sense of what I would be able to contribute. During a visit to Lowndes County with the D-SIGN team last summer, however, I learned that the water problem is also a soil problem; the septic technology approved by the health department doesn’t work largely because of the soil structure of the “Black Belt” region of Alabama. Even more, it was the black, fertile soil of the Black Belt that proved so attractive to the cotton planters who drove demand for the domestic slave trade from the Upper South to the Black Belt.

I also learned that the famous Selma to Montgomery marchers crossed through and slept in Lowndes County, and that Stokely Carmichael first articulated the turn to black power on Lowndes soil. I then visited the Equal Justice Initiative in Montgomery and learned about their project to collect soil from historic lynching sites as part of their community memory initiative to renarrate the history of racial hierarchy in the U.S. from slavery to mass incarceration. EJI invokes hundreds of jars of soil as a witness to the era of racial terrorism and to our current responsibility to understand and combat this legacy of violence-enforced hierarchy.

As a student of Christian political theology, I immediately thought of Yahweh’s words to Cain after he killed his brother Abel, “The voice of your brother’s blood is crying to me from the ground.” When words fail, the soil can speak. But who is listening?

In short, I discovered that my role on the team was to tell these more than technical and political aspects of the project. This is a story of soil, souls, and society. Since last summer, I deepened these initial connections between the wastewater issue, EJI, and theology. I also mentored a graduate student in theology and environmental management on these themes. Together, we are proposing a panel on Lowndes County at Baylor University’s Symposium on Faith & Culture this fall.

—Ryan Juskus, third-year Ph.D. student in Religion

Peace and Justice Summit

Lastly, the team attended the opening of EJI’s lynching memorial and the Peace and Justice Summit in Montgomery, Alabama in April 2018. Both the memorial and summit were profoundly moving experiences, sober, informative, and motivating all at once.

National Memorial for Peace and Justice

Our work would not have been possible without the generous support of The Graduate School and the four-year partnership between the Duke Human Rights Center at the Franklin Humanities Institute (FHI) and the Alabama Center for Rural Enterprise. We thank Ms. Catherine Coleman Flowers (ACRE), Dr. Erika Weinthal (NSOE & FHI), Dr. Elizabeth Albright (NSOE), Dr. Megan Mullin (NSOE), and Emily Stewart (FHI) for their commitment, effort, and expertise.

About D-SIGN

This internal funding mechanism from the Office of the Vice Provost for Interdisciplinary Studies encourages graduate students to explore beyond disciplinary lines, both in research and coursework. The goal is to enable graduate students to build or extend their networks and to integrate collaborative, cross-school experiences into their programs, thereby increasing the number of individuals whose graduate training reflects Duke’s commitment to interdisciplinarity and knowledge in the service of society.

  • See who else received D-SIGN grants in 2017-2018.

 

Photos: The D-SIGN team with faculty and community partners in Alabama; Emily Meza, Katy Hansen, and Ryan Juskus; the team looking at the lagoon near Hayneville; Kelsey Rowland, Carly Osborne, and Emily Meza at the stakeholder meeting in Washington, D.C.; Katy Hansen and Danielle Purifoy at the AAG; National Memorial for Peace and Justice

Molecular Modeling Techniques Aid Exploration of Environmental Contamination

Kirsten Overdahl

As a Ph.D. student in Integrated Toxicology and Environmental Health, Kirsten Overdahl is exploring the occurrences and biological effects of emerging environmental contaminants in indoor environments. To further her dissertation research, she sought to purchase software to implement machine learning-based molecular modeling to predict chemical behaviors.

Overdahl was among 18 Duke University students who received Graduate Student Training Enhancement Grants (GSTEG) in 2017-2018 from the Office of the Vice Provost for Interdisciplinary Studies for training beyond their core disciplines. Her faculty mentor for the grant was P. Lee Ferguson; she is currently co-mentored by Dr. Ferguson and by Heather M. Stapleton.

She provided an update on her GSTEG experience, excerpted below.

I spent Fall 2017 in the Molecular Modeling Lab in the Eshelman School of Pharmacy at UNC-Chapel Hill three times per week, training on the modeling techniques that we have since begun to implement in our laboratory. This training was not only empirically valuable, but also financially valuable as well: we became aware of many freely available, public-domain modeling programs, and as a result, we were able to narrow our choice of a license that did require purchasing.

We spent Spring 2018 exploring how we could successfully implement public-domain programs; while we can do many things with these programs, we elected to purchase Schrodinger’s Materials Science Suite. This program will allow us to generate all possible 3-dimensional conformers of the 2-dimensional molecular structures we are able to identify in our search for emerging environmental contaminants. By generating 3-dimensional conformers, we aim to make great strides in our abilities to predict how emerging environmental contaminants may interact with receptors in the body.

We are currently preparing to purchase our Materials Science license. We expect to complete our purchase by the end of this summer, and we look forward to exploring new environmental contamination research moving from chemical identification to behavioral predictions.

About GSTEG

This internal funding mechanism from the Office of the Vice Provost for Interdisciplinary Studies encourages doctoral and master’s students to step away from their core research and training to acquire skills, knowledge, or co-curricular experiences that will give them new perspectives on their research agendas. Graduate Student Training Enhancement Grants are intended to deepen preparation for academic positions and other career trajectories.

  • Read other GSTEG updates from the 2017-18 grantees.
  • See who received GSTEG grants for 2018-19.

Students Explore Discourses and Practices of Militarization in the Global South

Working group meeting

Are there trends in the types of sociopolitical violence that have characterized social movements after the Arab Spring? How has this violence been represented in the media and in popular culture? What are the legal and political consequences of such representations?

Renee Michelle Ragin and Giulia RiccòThese questions fascinated Duke University doctoral students Renée Michelle Ragin (Literature) and Giulia Riccò (Romance Studies). Inviting other graduate students to join them in an interdisciplinary exploration, they created a working group called The Global South after 2010: Epistemologies of Militarization. Guided by their faculty sponsors Deborah Jenson and miriam cooke, Ragin and Riccò received a Duke Support for Interdisciplinary Graduate Networks (D-SIGN) grant for use in 2017-2018. Here are excerpts from their year-end report.


We began the activities of our working group with an outreach meeting in September 2017. During this session, we selected the themes for the group’s workshops. We also began coordinating with the codirectors of the Global South Lab at the Institute of the Humanities and Global Cultures at the University of Virginia (UVA). Our introduction came as a result of our participation in the Academy of Global Humanities’ summer school program, hosted by the University of Bologna and cosponsored by Duke and UVA.

The Extravagance of Drones

drones workshop flyerThanks to our outreach, we secured UVA Professor Camilla Fojas as the presenter and facilitator of our October 2017 workshop on the use of drone surveillance on the US-Mexico border. We realized that having a subject-matter expert assign the reading and moderate the workshop yielded more productive conversations than when we simply structured the workshop around readings we selected. After this event, we took Professor Fojas to dinner, at which time she extended an invitation to come to UVA and organize a workshop on epistemologies of militarization.

In November, we began circulating the call for papers for our colloquium and reaching out to possible keynote speakers. We contacted a Duke alumnus, Professor Paul Amar at UC Santa Barbara, who is the director of graduate studies in the Department of Global Studies. He accepted enthusiastically; his areas of study, which encompass both Brazil and the Middle East, speak to our combined interests, and his current research on new forms of militarism and paramilitarism in Brazil aligned with the working group’s mission.

Militarization, Statelessness, and Refugees in the Global South

The third meeting of the working group took place during the first week of December. We invited two Duke professors, Ranjana Khanna (English, Literature, and Women’s Studies) and Robin Kirk (Human Rights Center and Cultural Anthropology), to speak about refugees and the space of the refugee camp.

Their different disciplinary backgrounds allowed us to work toward an interdisciplinary understanding of issues surrounding militarization in the contemporary world. Indeed, as the working group progressed, we realized how important it was to focus on ensuring that our understanding and interpretation of militarization encompassed its myriad forms in the contemporary moment. Through these workshops we were able to identify what militarization looks like today, and where we encounter it.

Translation and Publishing in the Global South

January workshop In January 2018, we collaborated with Sylvia Miller, director of the Publishing Humanities Initiative at the Franklin Humanities Institute, to organize a day-long symposium dedicated to publishing and translating in the Global South. This symposium shifted the focus of our working group on to questions of who produces knowledge in and about the Global South. It also offered Duke graduate students working on the Global South the opportunity to find out more about career options available to them as a result of a panel that included representatives of the three major academic presses in the area (UNC Press, Duke University Press, and Oxford University Press).

Giulia Riccò and Renee Michelle Ragin at UVAThe keynote speaker, Professor Juan Obarrio from John Hopkins University, introduced the new Duke University Press journal series he launched with Professor Achille Mbembe, which is dedicated to highlighting critical thinkers from the Global South. Professor Obarrio is now a contributing author to a special issue of a journal, which we are editing and will be released in summer 2019.

Our February 2018 trip to UVA pushed us to reflect on our findings, while giving us a receptive forum in which to test our ideas. We used our talk at UVA as an opportunity to pilot ideas for a cowritten research article, and the positive response we received encourage us to expand our ambitions and find a journal willing to allow us to serve as coeditors for a special issue on contemporary militarization.

Also in February, we supported Duke Professor Shai Ginsburg’s conference Emergency Legal Cultures: British Imperial Cultures. The working group was officially listed as a sponsor and we served as the respondents for the two panels.

Re-Membering Torture

The last workshop took place in March 2018 and featured Professor Shahla Talebi from Arizona State University and her graduate student, Diana Coleman. We discussed the role of the torturers in black sites such as Guantanamo, and read excerpts from Darius Rejali’s Torture and Democracy.

Epistemologies of Militarization in the Global South After 2010

colloquium flyerOn April 12 and 13 we hosted our colloquium. We chose a seminar-style format with precirculated papers in order to give us ample time to discuss participants’ research throughout the day. It was an intellectually stimulating experience and left us with provocative questions that we are addressing in our cowriting.

One of the colloquium respondents, Duke Professor Michaeline Crichlow, offered us the opportunity to curate a special issue of Cultural Dynamics: Insurgent Scholarship on Culture, Politics, and Power. The title of the issue is “Epistemologies of Militarization in the Global South,” and is forthcoming in June 2019.

It includes two papers from the colloquium, and contributions from several working group collaborators, including Camilla Fojas (UVA), Juan Obarrio (John Hopkins), and Diana Coleman (Arizona State). The article that we are cowriting is going to be the introduction for the issue.


About D-SIGN

This internal funding mechanism from the Office of the Vice Provost for Interdisciplinary Studies encourages graduate students to explore beyond disciplinary lines, both in research and coursework. The goal is to enable graduate students to build or extend their networks and to integrate collaborative, cross-school experiences into their programs, thereby increasing the number of individuals whose graduate training reflects Duke’s commitment to interdisciplinarity and knowledge in the service of society.

  • See who else received D-SIGN grants in 2017-2018.

 

Photos: Working group meeting; Renée Michelle Ragin and Giulia Riccò; drones workshop flyer; Translation and Publishing in the Global South event; Riccò and Ragin at UVA; colloquium flyer

Graduate Student Network Imagines a World with Sustainable Energy for All

A few of the entries to ImaginEnergy

The Global Energy Access Network (GLEAN) is an interdisciplinary group of more than 50 Duke graduate and professional students who aim to advance sustainable solutions to address the world’s energy access challenges.

Yating Li, Muye Ru, Faraz Usmani, and Heidi VreelandHoused at the Duke University Energy Initiative, GLEAN received a Duke Support for Interdisciplinary Graduate Networks (D-SIGN) grant in 2016-17 and a follow-on D-SIGN grant in 2017-18. Doctoral students Yating Li and Faraz Usmani (Environmental Policy), Muye Ru (Earth & Ocean Sciences), and Heidi Vreeland (Civil & Environmental Engineering) served as coordinators. Their faculty sponsors were Subhrendu Pattanayak and Brian Murray.

Here are excerpts from their year-end report.


Speaker Series

A meeting of GLEAN students with Jim Rogers;GLEAN’s Energy Access Speaker Series brings world-renowned energy-access researchers and practitioners to Duke. Critically, the selection of speakers is driven entirely by the students who are part of the GLEAN community, ensuring overlap in mutual interests between visiting speakers and students.

GLEAN sponsored and organized the visits of three speakers: Professor Shu Tao (Peking University), who spoke on the rural energy transition in China; Dr. Akanksha Chaurey (ITP India), who shared her experiences developing a renewable energy strategy for Afghanistan; and Professor Jill Baumgartner (McGill University), who highlighted the importance of clean-energy programs in the context of air pollution in China.

The Speaker Series creates tangible opportunities for graduate, professional, and undergraduate students to engage with leaders in the field.

–Faraz Usmani

GLEAN’s visiting speakers recognize the breadth of talent and experiences that the students in the network have.

–Muye Ru

Case Studies

cover of volume 1 of GLEAN case studiesCurrently in its final stages of production, GLEAN’s second volume of energy-access case studies will present important research takeaways from up to five GLEAN members, providing distinct experiences on energy access across key regions of the developing world.

Focusing on a diverse range of topics—from the implications of improving energy finance for India’s solar industry to measurement of the impacts of cleaner cooking technologies in rural Madagascar—the volume aims to inform researchers, practitioners, students, and others working on energy access and energy transitions.

GLEAN’s second volume of case studies is expected to be released by the end of Summer 2018. The first volume was published in June 2017.

GLEAN members have contributed to a wide range of energy-relevant research applications across the world. The case studies collection will compile these experiences for policymakers, practitioners and researchers, who frequently find themselves ‘reinventing the wheel’ when engaging with unfamiliar contexts or communities.

–Heidi Vreeland

ImaginEnergy Photo Contest

Hannah Girardeau’s entry to ImaginEnergyRecognizing that visual media can highlight the reality of energy poverty in remote, rural settings in new and distinct ways, GLEAN organized the ImaginEnergy Photo Contest—open to students from across the world. The contest received over 40 submissions.

Winners—selected via a social media campaign led by the Energy Initiative—had the opportunity to display their photos as part of a DUU VisArts curated exhibition at Duke’s Brown Art Gallery, which runs through the end of Summer 2018.

Their photographs were also on display during the annual meeting of the Sustainable Energy Transitions Initiative (SETI), which was hosted by Duke for the third consecutive year in May 2018.

Lack of access to energy is a multidimensional challenge, and sometimes a picture is indeed worth a thousand words when it comes to demonstrating the scale of the challenge.

–Yating Li

About D-SIGN

This internal funding mechanism from the Office of the Vice Provost for Interdisciplinary Studies encourages graduate students to explore beyond disciplinary lines, both in research and coursework. The goal is to enable graduate students to build or extend their networks and to integrate collaborative, cross-school experiences into their programs, thereby increasing the number of individuals whose graduate training reflects Duke’s commitment to interdisciplinarity and knowledge in the service of society.

  • See who else received D-SIGN grants in 2017-2018.

 

Photos: A few of the entries to ImaginEnergy; Yating Li, Muye Ru, Faraz Usmani, and Heidi Vreeland; a meeting of GLEAN students with Jim Rogers; cover of volume 1 of GLEAN case studies; Hannah Girardeau’s entry to ImaginEnergy

Project on Color Vision of Shrimp Helps Biology Students See Data Science in New Light

Patrick Green and Eleanor Caves

We are all data scientists these days, to one degree or another. The ability to explore and analyze data helps us make sense of our world.

Duke’s Data Expeditions program aims to introduce more undergraduates to data science early in their college education. The Information Initiative at Duke (iiD), in partnership with the Social Science Research Institute (SSRI), supports pairs of graduate students to prepare a dataset for use in an existing undergraduate course.

Patrick Green teaching Data ExpeditionsIn one Data Expedition project, Exploring Cleaner Shrimp Color Vision Capabilities Using R, Biology doctoral students Eleanor Caves and Patrick Green teamed up with Professor Sönke Johnsen to pilot their approach in an introductory summer course called Sensory Systems. Green and his advisor Sheila Patek then adapted it for use in an upper-level lab course, Principles of Animal Physiology.

“Especially if classes have a lab component, getting students some experience with importing, analyzing, and plotting data can be invaluable,” said Caves. “I remember struggling with Excel to write my own lab reports in college, and if someone had just given me the tools to code, and then inspired me to use those tools for a couple of reports, I would have been so much more comfortable with different aspects of data analysis.”

“This is a critical tool for students to learn,” Green added, “whether they use data in their future careers or whether they’re just trying to understand the world around them as they, for example, vote and raise families.”

Cleaner shrimp working on a fishCleaner shrimp are crustaceans that provide handy cleaning services to reef fish by removing ectoparasites. The project’s aim was to investigate how cleaner shrimp perceive the color patterns of other cleaner shrimp and fish. Caves collected the data as part of her doctoral dissertation.

In the class, she and Green introduced the ecology of cleaner shrimp, asked the students to make predictions about color vision capability and taught coding sessions in R.

Along the way, both the undergraduates and the instructors faced challenges.

“What makes coding frustrating on an individual level translates into the classroom,” said Caves. “Typos and minor errors that can send coding errors back at you occur on the students’ computers too, and you have to be ready to troubleshoot on your feet.”

Patrick Green working with Data Expeditions students

“Similar to Eleanor, I learned that these activities move more slowly than we might expect,” noted Green. “It was incredibly useful to have ‘teachable moments’ when students hit error messages. Even if these errors were caused by simple misspellings, it allowed us to show students that this is normal and fixable – not an impassible roadblock. Because we coded in real-time along with the students, we were also able to showcase our own mistakes and humanize the process, something I think is useful for students to see.”

The students soon learned how to subset, index, plot, change the color and shape of data points, add best fit lines, change line width and type, and create smooth spectral sensitivity curves (which show how sensitive photoreceptors are across the visible spectrum of light).

Figure from Data ExpeditionsAt the end, they created a figure of spectral sensitivity for several individuals of the same species. They compared their results to their predictions and discussed how they might use their new skills to analyze data they’ll collect in future lab-based courses.

And they seemed to enjoy the process. Caves noted, “I’ve been pleasantly surprised at how attentive the students remain and how engaged they seem the whole time.”

“It never occurred to me that I would need to learn how to code,” wrote one student in an end-of-class reflection, “but I am glad that I get to learn this.” Another student wrote, “It was actually easier than I expected, since coding seems so out of reach when you don’t know what is happening or what the terms mean. I could definitely use R in the future for projects where I am required to use data.”

At the end of the day, coding gives students a deeper understanding of data to solve real-world problems. “It gives students, even those who won’t go on to do research of their own, a respect for the scientific process, how we analyze our data, and where results come from, so that hopefully they can be more informed citizens and interpreters of the overwhelming number of facts they’re exposed to every day,” said Caves.

Eleanor Caves and Patrick Green with their advisors

Both Caves and Green received the Dean’s Award for Excellence in Mentoring from The Graduate School. They graduated this spring and are now postdoctoral researchers in Duke’s Biology Department with the Nowicki Lab.

“I have been surprised to learn during my Ph.D. that I can code, and that I am somewhat good at it,” Green reflected. “This has taken lots of trial and error, but I am motivated to continue learning and developing these skills in my research. Being able to use the same skills in my teaching is something that expands my teaching abilities and, I hope, will improve my ability to reach new generations of students.”

See other Data Expeditions projects and learn about a new program at Duke called Archival Expeditions. Photos at top and bottom courtesy of The Graduate School; other photos courtesy of Eleanor Caves and Patrick Green.

Duke Students Share Skills with a Rural Mexican Community to Strengthen Ecotourism

Duke Desarrollo Mexico team

Ruxandra Popovici, a Ph.D. student in Environment, teamed up with Emilio Blanco Gonzalez and Adam Cullen, master’s students in Mechanical Engineering, on a proposal to help a rural Mexican community develop a renewable energy strategy and a business plan for sustainable ecotourism.

They received a Duke Support for Interdisciplinary Graduate Networks (D-SIGN) grant from the Office of the Vice Provost for Interdisciplinary Studies for use in 2017-2018, with faculty sponsor Elizabeth Shapiro-Garza.

Last summer, the three graduate students traveled with undergraduate Matheus Dias to Playa Grande. They assessed the community’s ecotourism business and energy needs, and generated two reports with recommendations.

Here are excerpts from their year-end report.

Playa Grande is a Mexican ejido, where land is jointly owned by a group of 70 community members. Residents of Playa Grande, like many rural communities in Mexico, participate in government-funded conservation programs where community members receive monetary compensation in exchange for their involvement in the sustainable management and stewardship of communal natural resources. Their conservation activities include fire prevention, protection against illegal logging and hunting, and maintaining corridors for jaguar protection.

Ejido Playa Grande

Ejido Playa Grande is part of a small group of communities that decided to invest their conservation program earnings into an ecotourism business, which is jointly owned by community members. Their company has been growing but community members are looking to improve their business strategy in order to attract more customers, as well as to transition to a renewable energy strategy to power their tourist center.

Selva Ecoturistica Playa Grande

A common problem encountered by rural communities in Mexico is that it is difficult to access experts that can provide specialized assistance in fields such as business, marketing, and engineering. To remedy this situation, students at Duke created Economic Sustainability, an initiative that connects rural community members to “student experts” that assist residents with their business and engineering needs.

Solar panels, Playa GrandeAdam and Emilio evaluated three renewable energy options – hydro, wind, and solar – and recommended that the community invest in additional solar panels, which they have found to be the most cost-effective option. Community leaders in Playa Grande have already bought additional solar panels based on this recommendation.

Matheus, an economics major, created a report documenting the community’s existing business structure and activities. This report is extremely useful for community members, as it provides concrete documentation about their business, which they can use to apply for loans and government grants. In addition, Matheus conducted research on the region’s ecotourism market and provided suggestions for improving the ecotourism business and developing future services.

Ruxandra interviewed micro-entrepreneurs. She facilitated a partnership with NC State’s P1tLab, whose students, faculty, and staff provide guidance on the community’s marketing and business strategy. Due to the very competitive and vertically integrated nature of the tourism industry in the region, this community is struggling to “capture” visitors from the international enclave destination of Puerto Vallarta. Through this partnership with Duke and NC State’s P1tLab, members of Ejido Playa Grande will attempt to penetrate local retail monopolies to advertise their services directly to potential visitors.

Duke students, Playa Grande

About D-SIGN

This internal funding mechanism from the Office of the Vice Provost for Interdisciplinary Studies encourages graduate students to explore beyond disciplinary lines, both in research and coursework. The goal is to enable graduate students to build or extend their networks and to integrate collaborative, cross-school experiences into their programs, thereby increasing the number of individuals whose graduate training reflects Duke’s commitment to interdisciplinarity and knowledge in the service of society.

  • See who else received D-SIGN grants in 2017-2018.