Literature Review: Open-Source Framework for Parameter-Based Morphogenetic Modeling of Macroscopic Plant Growth and Development

Notes to Reader[edit | edit source]

This literature is in it's early stages and is not ready for uncoordinated contribution. Reach out to the author or check back later!

• github.com/CameronBrooks11/GeoGrow (Private)

Background[edit | edit source]

Search Strategy & Terms[edit | edit source]

Key words terms (KWT)

1. "term1" AND "term2"
2. "term1"
3. "term1" OR "term2"

Strategies

1. Searched [site] using KWT1 and KWT3

What is Morphogenetic Modeling of Macroscopic Plant Growth and Development!?[edit | edit source]

The "What" of the topic.

Theoretical Framework[edit | edit source]

The "How" of the topic.

Significance and Importance[edit | edit source]

The "Why" of the topic.

Current State of the Art[edit | edit source]

The "When" of the topic. Review current state with an emphasis on the development of the field over time.

Relevant Stakeholders[edit | edit source]

The "Who" of the topic.

Applicability and Context[edit | edit source]

The "Where" of the Topic

Literature[edit | edit source]

TODO[edit | edit source]

• Create lists and sub-lists of topics that need to be further reviewed.

Subtopic 1[edit | edit source]

Paper/Website/Source Title[edit | edit source]

Zotero citation field with the URL (DOI preferred).

• Each top-level point should be a clear and concise key item from the source (methodology, info, design, gap, etc.)
  • Sub points are to be concise explanations of critical aspects of the key item
  • Should not be a copy and paste of info but rather an interpretation of what parts are relevant and why, selective copy & paste of relevant snippets is fine.

Subtopic 2[edit | edit source]

1. Adam Spannbauer. (n.d.). Retrieved January 27, 2024, from https://adamspannbauer.github.io/2018/10/07/oop-fractal-trees-in-r-with-r6-ggplot2-gganimate-part-1/
2. Adams, T. P., Holland, E. P., Law, R., Plank, M. J., & Raghib, M. (2013). On the growth of locally interacting plants: Differential equations for the dynamics of spatial moments. Ecology, 94(12), 2732–2743. https://doi.org/10.1890/13-0147.1
3. Burns, A. M. (n.d.). Recursion in Nature, Mathematics and Art.
4. Chen, H., & Pasquero, C. (2024). Making Matter: Small-Scale Biomorphogenic Prototype Based on Ulva-Algae-Biopolymer. In C. Yan, H. Chai, T. Sun, & P. F. Yuan (Eds.), Phygital Intelligence (pp. 379–394). Springer Nature Singapore. https://doi.org/10.1007/978-981-99-8405-3_32
5. Eric. (2017, March 4). Getting creative with OpenSCAD. Getting Creative with OpenSCAD. https://eribuijs.blogspot.com/2017/03/getting-creative-with-openscad.html
6. Fractal Pyramid (OpenScad script) by Vendicar Decarian | Download free STL model | Printables.com. (n.d.). Retrieved January 27, 2024, from https://www.printables.com/model/400735-fractal-pyramid-openscad-script
7. Fractal Tree Generator by Centuria Game Dev. (n.d.). Itch.Io. Retrieved January 27, 2024, from https://the-coding-geek.itch.io/fractal-tree-generator
8. Fractal Trees. (n.d.-a). Retrieved January 27, 2024, from https://www.cs.put.poznan.pl/kbonenberg/portfolio/work5/
9. Fractal Trees. (n.d.-b). Retrieved January 27, 2024, from https://www.math.union.edu/research/fractaltrees/
10. Galitskii, V. V. (2003). The 2D modeling of tree community: From “microscopic” description to macroscopic behavior. Forest Ecology and Management, 183(1), 95–111. https://doi.org/10.1016/S0378-1127(03)00096-3
11. Homework 4: Drawing Fractals. (n.d.). Retrieved January 27, 2024, from https://mathcs.clarku.edu/~cs121/homework/fractals/
12. John Paul Ryan: Fun with Fractal Trees. (n.d.-a). Retrieved January 27, 2024, from https://www.johnpaulryan.com/blog/2016/09/20/Fun-with-Fractal-Trees
13. John Paul Ryan: Fun with Fractal Trees. (n.d.-b). Retrieved January 27, 2024, from https://www.johnpaulryan.com/blog/2016/09/20/Fun-with-Fractal-Trees
14. Kaandorp, J. A. (1994). Fractal Modelling: Growth and Form in Biologie. Springer Science & Business Media.
15. MacKerron, D. K. L. (2007). Chapter 35—Mathematical Models of Plant Growth and Development. In D. Vreugdenhil, J. Bradshaw, C. Gebhardt, F. Govers, D. K. L. Mackerron, M. A. Taylor, & H. A. Ross (Eds.), Potato Biology and Biotechnology (pp. 753–776). Elsevier Science B.V. https://doi.org/10.1016/B978-044451018-1/50077-4
16. Mastering OpenSCAD. (n.d.). Retrieved January 27, 2024, from https://mastering-openscad.eu/buch/example_08/
17. Merks, R. M. H., Guravage, M., Inzé, D., & Beemster, G. T. S. (2011). VirtualLeaf: An Open-Source Framework for Cell-Based Modeling of Plant Tissue Growth and Development. Plant Physiology, 155(2), 656–666. https://doi.org/10.1104/pp.110.167619
18. OpenCSCAD. (n.d.). Retrieved January 27, 2024, from https://smcameron.github.io/opencscad/
19. Prusinkiewicz, P., & Runions, A. (2012). Computational models of plant development and form. New Phytologist, 193(3), 549–569. https://doi.org/10.1111/j.1469-8137.2011.04009.x
20. Recursive Fractal Trees. (2016, May 30). https://thecodingtrain.com
21. Recursive Tree (Openscad) by Openscaddad | Download free STL model. (n.d.). Printables.Com. Retrieved January 27, 2024, from https://www.printables.com/model/212935-recursive-tree-openscad
22. Thi Phuong Chi, L. (2021). Fractal geometry and applicability to biological simulation shapes for sustainable architecture design in Vietnam. Environmental Science and Pollution Research, 24. https://doi.org/10.1007/s11356-020-08417-9
23. Thingiverse.com. (n.d.). Subdivision Fractal Thing—OpenSCAD by Torleif. Retrieved January 27, 2024, from https://www.thingiverse.com/thing:1343696
24. Vandewalle, N., & Ausloos, M. (1997). Construction and properties of fractal trees with tunable dimension: The interplay of geometry and physics. Physical Review E, 55(1), 94–98. https://doi.org/10.1103/PhysRevE.55.94

Bibliography[edit | edit source]

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