Difference between revisions of "User:ANoecker"
From REU@MU
(→Week 3: 6/14-6/18) |
(→Week 10: 8/2 - 8/6) |
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| − | == | + | ==Final Poster== |
| + | {| cellpadding="10" cellspacing="10" | ||
| + | | [[Image:Final-Poster-Submission-Andrew-Noecker.png|200px|link=https://reu.cs.mu.edu/images/thumb/0/03/Final-Poster-Submission-Andrew-Noecker.png/1600px-Final-Poster-Submission-Andrew-Noecker.png]] | ||
| + | |} | ||
| + | |||
| + | ==Executive Summary== | ||
| + | |||
| + | As a double major in Math and Computer Science with a concentration in Statistics and Data Science, participating in Marquette University's Research Experience for Undergraduate Students (REU) will develop necessary skills for the future. These include conveying and communicating the importance of the research in tandem with data management, visualization, and architecture. This will help fill the gap of data science researchers who can think creatively to solve problems in interdisciplinary fields such as healthcare and nutrition. A collaborative team including myself and mentorship from Dr. Bialkowski and Dr. Gretebeck will towards '''[[Capturing nutritional value at the point of consumption using accessible and inexpensive technologies]]'''. | ||
| + | |||
| − | |||
== Project Description== | == Project Description== | ||
| Line 7: | Line 14: | ||
The National Institute of Diabetes and Digestive and Kidney Diseases (NIDDK) seeks to optimize metabolic response in individuals or population subgroups through tailored dietary approaches to promote health and prevent and treat disease. Accurate assessment of nutritional intake among community-dwelling individuals at the point of intake is a major obstacle in precision nutrition evaluation. Without this fundamental information about nutritional lifestyle factors, a highly modifiable environmental condition, disparities across Race, Ethnicity, socioeconomic status, and age will persist. Our team of cross-disciplinary researchers is combining expertise in hyperspectral imaging, image processing, mobile technology, analytics, nutrition, psychology and human motivation to develop a robust and accurate platform of nutrition evaluation at the point of consumption. This important translational step forward will empower researchers across disciplines with the information needed to facilitate meaningful change and more equitable access to health. | The National Institute of Diabetes and Digestive and Kidney Diseases (NIDDK) seeks to optimize metabolic response in individuals or population subgroups through tailored dietary approaches to promote health and prevent and treat disease. Accurate assessment of nutritional intake among community-dwelling individuals at the point of intake is a major obstacle in precision nutrition evaluation. Without this fundamental information about nutritional lifestyle factors, a highly modifiable environmental condition, disparities across Race, Ethnicity, socioeconomic status, and age will persist. Our team of cross-disciplinary researchers is combining expertise in hyperspectral imaging, image processing, mobile technology, analytics, nutrition, psychology and human motivation to develop a robust and accurate platform of nutrition evaluation at the point of consumption. This important translational step forward will empower researchers across disciplines with the information needed to facilitate meaningful change and more equitable access to health. | ||
| − | ==Main Objectives | + | ==Main Objectives== |
* Understanding and capturing the information that we're working on and being able to tell people why this is important and why it matters | * Understanding and capturing the information that we're working on and being able to tell people why this is important and why it matters | ||
| Line 17: | Line 24: | ||
| − | === Week 1: 6/1-6/4=== | + | === Week 1: 6/1 - 6/4=== |
* Attended orientation | * Attended orientation | ||
| Line 24: | Line 31: | ||
* Learned about and set up wiki page | * Learned about and set up wiki page | ||
* Developed list of desired skills that will be grown throughout the summer; these will be used to map out goals/milestones for the next 8-9 weeks in collaboration with Dr. Bialkowski and Dr. Gretebeck | * Developed list of desired skills that will be grown throughout the summer; these will be used to map out goals/milestones for the next 8-9 weeks in collaboration with Dr. Bialkowski and Dr. Gretebeck | ||
| − | * Performed literature review of available technology for | + | * Performed literature review of available technology for: |
| − | ** Prepared brief summary paper | + | **Capturing food images |
| + | **Quantifying food volume | ||
| + | *Prepared brief summary paper and concise [https://docs.google.com/presentation/d/1-VlLcket_pBv7QaKb1Vt3xQTnX4SO8UdVm-_DYxVohY/edit?usp=sharing presentation] for mentors and overall project team | ||
| + | === Week 2: 6/7 - 6/11=== | ||
| − | + | *Completed Responsible Conduction of Research Training for Federal Researchers (synchronous with Dr. Brylow on Monday, asynchronous modules on Tuesday) | |
| + | *[https://docs.google.com/presentation/d/1rNYWSCwRAA9cVhu8vbB2PkosMAcb7OdytQAXGS_C7oU/edit?usp=sharing Performed Literature Review] on technology currently available for quantifying food nutrient composition, specifically examining hyperspectral imaging | ||
| + | *Met with mentors to discuss how hyperspectral imaging is used for crops and harvest | ||
| + | *Discussed opportunities to use this technology at the point of consumption | ||
| + | *Met with REU fellow from 2020 to hear about her experience and advice she had for the program | ||
| − | + | ===Week 3: 6/14 - 6/18=== | |
| − | + | ||
| − | + | ||
| − | + | ||
| − | + | *Reviewed and characterized codebook of USDA Food and Nutrient Database for Dietary Studies (FNDDS) | |
| + | * Created draft of new codebook for convolutional neural network database storing information about: | ||
| + | ** Image information | ||
| + | ** Segmented food volume | ||
| + | ** Nutrient content | ||
| + | <!-- Data Architecture: Codebook, specification, example of how we'll use the data analytics for the grant proposal | ||
| + | Most likely will meet with Hasanul to discuss what he has in mind. | ||
| − | + | Keep in mind Daniel's note about maybe allowing users to sell their data and Iqbal's comments on blockchain. | |
| − | + | ||
| − | + | ||
| − | + | ||
| − | + | ||
| − | + | ||
| − | + | ||
| − | + | ||
| − | Keep in mind Daniel's note about maybe allowing users to sell their data and Iqbal's comments on blockchain | + | |
Going to need a lot of research for all of these to get up to speed --> | Going to need a lot of research for all of these to get up to speed --> | ||
| + | *Designed paper prototype for poster presentation | ||
| − | ===Week 4=== | + | ===Week 4: 6/21 - 6/25=== |
| − | * | + | * Read about data gathered in other hyperspectral imaging studies |
| − | * | + | * Continued to work on drafting codebook by: |
| + | **Updating format and style | ||
| + | ** Adding variables that merge with BAP | ||
| + | ** Adding hyperspectral image sensor variables | ||
| + | *Met with Dr. Daniel Pinto and his graduate students to discuss the following regarding Brief Action Planning (BAP): | ||
| + | ** What it entails | ||
| + | ** How data is stored and what variables are examined | ||
| + | ** How it can be transferred to nutrition from physical activity | ||
| + | * Began to clean USDA Food and Nutrient Database for Dietary Studies (FNDDS) and create some preliminary visuals | ||
| + | * Researched target wavelengths for proteins, fats, and carbohydrates | ||
| − | + | === Week 5: 6/28 - 7/2=== | |
| − | == | + | *Prepared and gave [https://1drv.ms/p/s!AjdrnuiIkYKKgct1xN_IuG5iwbNlEw?e=Ej9YqH lightning talk] on progress thus far for REU program |
| + | *Researched appropriate wavelengths for targeting fats, proteins, and carbohydrates | ||
| + | *Continued cleaning USDA FNDDS and brainstorming possible visuals | ||
| + | *[https://1drv.ms/p/s!AjdrnuiIkYKKgcwb0MFxTwxEwzqHtg?e=FXitx7 Prepared several visuals] using FNDDS that could inform users when making decisions about food | ||
| − | * Create pilot visuals that can be included in grant proposal | + | ===Week 6: 7/5 - 7/9=== |
| + | |||
| + | *Began reading on how to simulate data in R | ||
| + | *Modified prepared visuals following suggestions from project team at 7/2 meeting | ||
| + | *Continued creating visuals using FNDDS to tell a story about the data | ||
| + | **Isolated breakfast foods and learned about waterfall and balloon plots as a way to quickly compare different breakfasts | ||
| + | **Isolated fruits and vegetables and created a heat map to quickly analyze different nutrient values | ||
| + | <!-- | ||
| + | * Simulate data using the codebook variables | ||
| + | * Create pilot visuals that can be included in grant proposal using that simulated data | ||
* These are crucial and are based on how we present preliminary data | * These are crucial and are based on how we present preliminary data | ||
* Important to show what sort of analysis and visuals can be achieved for the grant | * Important to show what sort of analysis and visuals can be achieved for the grant | ||
| − | * Continue to modify and touch up dataset design as needed | + | * Continue to modify and touch up dataset design as needed --> |
| + | |||
| + | ===Week 7: 7/12 - 7/16=== | ||
| + | *Created new waterfall plots and refined ones from last week | ||
| + | *Created new faceted bar plots showing different nutrient values for all breakfast foods | ||
| + | *Continued reading on simulation and began simulating nutrient values for food groups | ||
| + | *Simulated user confidence levels as a way to show how those could change over time | ||
| + | *Attended Northwestern Mutual Industry Panel | ||
| + | |||
| + | ===Week 8: 7/19 - 7/23=== | ||
| + | *Simulated what an ideal NIR spectrum chart would look like for protein, fats, and carbs | ||
| + | *Updated faceted bar plots by reordering nutrients to tell a more comprehensive story | ||
| + | *Created plot that showcases monounsaturated, polyunsaturated, and saturated fats as a proportion of total fats | ||
| + | *Grouped foods into groups based of meal, then created faceted waterfall plot to show different food's fat content per half pound. This could be quickly replicated for any other nutrient | ||
| + | *Began drafting final poster | ||
| − | + | ===Week 9: 7/26 - 7/30=== | |
| + | *Edited colors and shading on simulated NIR spectra plot and faceted waterfall plot to enhance the story telling | ||
| + | *Drafted a 48x36 poster to convey the work done this summer in an informative and visually appealing manner | ||
| + | *Presented the poster to the Nutrition Project Team and received critical feedback to help improve presentation skills and the poster itself | ||
| + | *Began outlining final research paper to be written next week | ||
| − | Week | + | ===Week 10: 8/2 - 8/6 === |
| − | * | + | *Edited and submitted final poster |
| − | * | + | *Attended and presented at REU Poster Symposium |
| + | *Gave final presentation to other REU Students | ||
| + | *Wrote and submitted final paper summarizing progress made during the summer | ||
Latest revision as of 15:07, 6 August 2021
Final Poster
|
Executive Summary
As a double major in Math and Computer Science with a concentration in Statistics and Data Science, participating in Marquette University's Research Experience for Undergraduate Students (REU) will develop necessary skills for the future. These include conveying and communicating the importance of the research in tandem with data management, visualization, and architecture. This will help fill the gap of data science researchers who can think creatively to solve problems in interdisciplinary fields such as healthcare and nutrition. A collaborative team including myself and mentorship from Dr. Bialkowski and Dr. Gretebeck will towards Capturing nutritional value at the point of consumption using accessible and inexpensive technologies.
Project Description
The National Institute of Diabetes and Digestive and Kidney Diseases (NIDDK) seeks to optimize metabolic response in individuals or population subgroups through tailored dietary approaches to promote health and prevent and treat disease. Accurate assessment of nutritional intake among community-dwelling individuals at the point of intake is a major obstacle in precision nutrition evaluation. Without this fundamental information about nutritional lifestyle factors, a highly modifiable environmental condition, disparities across Race, Ethnicity, socioeconomic status, and age will persist. Our team of cross-disciplinary researchers is combining expertise in hyperspectral imaging, image processing, mobile technology, analytics, nutrition, psychology and human motivation to develop a robust and accurate platform of nutrition evaluation at the point of consumption. This important translational step forward will empower researchers across disciplines with the information needed to facilitate meaningful change and more equitable access to health.
Main Objectives
- Understanding and capturing the information that we're working on and being able to tell people why this is important and why it matters
- Develop robust skills in data management and data architecture
- Utilize visual analytics to communicate a story about this effort to capture nutritional value at the point of consumption
Weekly Log
Week 1: 6/1 - 6/4
- Attended orientation
- Read grant proposal in order to get up to speed on the project
- Met with mentors to discuss project
- Learned about and set up wiki page
- Developed list of desired skills that will be grown throughout the summer; these will be used to map out goals/milestones for the next 8-9 weeks in collaboration with Dr. Bialkowski and Dr. Gretebeck
- Performed literature review of available technology for:
- Capturing food images
- Quantifying food volume
- Prepared brief summary paper and concise presentation for mentors and overall project team
Week 2: 6/7 - 6/11
- Completed Responsible Conduction of Research Training for Federal Researchers (synchronous with Dr. Brylow on Monday, asynchronous modules on Tuesday)
- Performed Literature Review on technology currently available for quantifying food nutrient composition, specifically examining hyperspectral imaging
- Met with mentors to discuss how hyperspectral imaging is used for crops and harvest
- Discussed opportunities to use this technology at the point of consumption
- Met with REU fellow from 2020 to hear about her experience and advice she had for the program
Week 3: 6/14 - 6/18
- Reviewed and characterized codebook of USDA Food and Nutrient Database for Dietary Studies (FNDDS)
- Created draft of new codebook for convolutional neural network database storing information about:
- Image information
- Segmented food volume
- Nutrient content
- Designed paper prototype for poster presentation
Week 4: 6/21 - 6/25
- Read about data gathered in other hyperspectral imaging studies
- Continued to work on drafting codebook by:
- Updating format and style
- Adding variables that merge with BAP
- Adding hyperspectral image sensor variables
- Met with Dr. Daniel Pinto and his graduate students to discuss the following regarding Brief Action Planning (BAP):
- What it entails
- How data is stored and what variables are examined
- How it can be transferred to nutrition from physical activity
- Began to clean USDA Food and Nutrient Database for Dietary Studies (FNDDS) and create some preliminary visuals
- Researched target wavelengths for proteins, fats, and carbohydrates
Week 5: 6/28 - 7/2
- Prepared and gave lightning talk on progress thus far for REU program
- Researched appropriate wavelengths for targeting fats, proteins, and carbohydrates
- Continued cleaning USDA FNDDS and brainstorming possible visuals
- Prepared several visuals using FNDDS that could inform users when making decisions about food
Week 6: 7/5 - 7/9
- Began reading on how to simulate data in R
- Modified prepared visuals following suggestions from project team at 7/2 meeting
- Continued creating visuals using FNDDS to tell a story about the data
- Isolated breakfast foods and learned about waterfall and balloon plots as a way to quickly compare different breakfasts
- Isolated fruits and vegetables and created a heat map to quickly analyze different nutrient values
Week 7: 7/12 - 7/16
- Created new waterfall plots and refined ones from last week
- Created new faceted bar plots showing different nutrient values for all breakfast foods
- Continued reading on simulation and began simulating nutrient values for food groups
- Simulated user confidence levels as a way to show how those could change over time
- Attended Northwestern Mutual Industry Panel
Week 8: 7/19 - 7/23
- Simulated what an ideal NIR spectrum chart would look like for protein, fats, and carbs
- Updated faceted bar plots by reordering nutrients to tell a more comprehensive story
- Created plot that showcases monounsaturated, polyunsaturated, and saturated fats as a proportion of total fats
- Grouped foods into groups based of meal, then created faceted waterfall plot to show different food's fat content per half pound. This could be quickly replicated for any other nutrient
- Began drafting final poster
Week 9: 7/26 - 7/30
- Edited colors and shading on simulated NIR spectra plot and faceted waterfall plot to enhance the story telling
- Drafted a 48x36 poster to convey the work done this summer in an informative and visually appealing manner
- Presented the poster to the Nutrition Project Team and received critical feedback to help improve presentation skills and the poster itself
- Began outlining final research paper to be written next week
Week 10: 8/2 - 8/6
- Edited and submitted final poster
- Attended and presented at REU Poster Symposium
- Gave final presentation to other REU Students
- Wrote and submitted final paper summarizing progress made during the summer
