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課程名稱 |
網絡生態學 Network Ecology |
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開課學期 |
113-2 |
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授課對象 |
生命科學院 生態學與演化生物學研究所 |
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授課教師 |
何熙誠 |
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課號 |
EEB5104 |
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課程識別碼 |
B44 U2160 |
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班次 |
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學分 |
2.0 |
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全/半年 |
半年 |
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必/選修 |
選修 |
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上課時間 |
星期四6,7(13:20~15:10) |
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上課地點 |
生科3C |
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備註 |
總人數上限:24人 |
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課程簡介影片 |
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核心能力關聯 |
核心能力與課程規劃關聯圖 |
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課程大綱
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課程概述 |
Networks in ecology encompass almost anything that can be represented by a set of points joined by edges. For example, a food web represents the feeding relationships within a community, which underpins the structure of material and energy flows among organisms and, in turn, fosters biodiversity and ecological functions. This course consists of weekly two‑hour lectures, covering fundamental concepts about ecological networks of various forms, as well as the relevant theories, quantitative and simulative techniques, implications, and applications. While the emphasis is on general concepts, case studies will also be introduced and discussed, supplemented with recent key studies. |
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課程目標 |
From the course, students are expected to comprehend fundamental concepts in Network Ecology, as well as relevant empirical and theoretical research methods. In particular, they should learn the ways of doing simple network analysis, making interpretation of network properties at different levels of organisation, and become familiar with contextualising recent publications in the field. |
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課程要求 |
Students should have taken General Biology and Ecology (both required). Possessing basic calculus and/or linear algebra understanding will be an advantage for comprehending this course, as the course covers some fundamental mathematics of network dynamics. The in-course practise may include hand-on network analyses, thus it would also be an advantage if the students can bring their laptop to the course, with R language installed. |
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預期每週課前或/與課後學習時數 |
1-2 hrs. |
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Office Hours |
另約時間 |
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指定閱讀 |
Will be provided throughout the semester. |
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參考書目 |
The content of weekly lectures is based on a synthesis of several textbooks:
.Food Webs: Integration of Patterns and Dynamics. Gary A. Polis and Kirk O. Winemiller. 1996.
.Ecological Networks: Linking Structure to Dynamics in Food Webs. Mercedes Pascual and Jennifer A. Dunne. 2005.
.Food Webs. Kevin McCann. 2011.
.Quantitative Analysis of Ecological Networks. Mark R. T. Dale and Marie-Josée Fortin. 2021.
Buying textbooks is NOT mandatory, as all needed contents will be covered in slides and shared with students.
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評量方式 (僅供參考) |
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No. |
項目 |
百分比 |
說明 |
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1. |
Take-home midterm and final exams |
30% |
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2. |
Group paper discussion (including reading assignments) |
30% |
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3. |
Practice |
20% |
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4. |
Attendance and participation |
20% |
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針對學生困難提供學生調整方式 |
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上課形式 |
以錄影輔助 |
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作業繳交方式 |
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考試形式 |
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其他 |
由師生雙方議定 |
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週次 |
日期 |
單元主題 |
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第1週 |
2/20 |
Lecture: Networks in Ecology
Practice: EcoBuilder |
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第2週 |
2/27 |
Lecture: Node- and edge-based network properties, and motifs
Practice: Data formats of networks, component-based metrics (e.g., trophic level), and R package "Cheddar" |
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第3週 |
3/6 |
Lecture: Holistic network structures
Practice: R packages "bipartite" & "igraph"
Activity: Assign reading groups & papers |
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第4週 |
3/13 |
Lecture: Network structural analysis
Practice: R packages "bipartite", "igraph" and null models |
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第5週 |
3/20 |
Lecture: Concepts and attributes of dynamic networks
Practice: Flow analysis with R package "fluxweb" and a bit of L-V simulation with "deSolve" |
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第6週 |
3/27 |
Lecture: Aspects of network stability.
Practice: Robustness and stability analyses with R packages "bipartite", "NetworkExtinction", and "fluxweb" |
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第7週 |
4/3 |
Holiday, no lecture.
Assign: Take-home midterm exam |
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第8週 |
4/10 |
Lecture: Multilayer networks
Practice: R pacakge "motifr" and other network visualising packages
Hand in: Reading assignment 1 |
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第9週 |
4/17 |
Activity: Group paper discussion 1
Hand in: Take-home midterm exam |
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第10週 |
4/24 |
Lecture: Food-web models (1)
Practice: R pacakge "trophic" |
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第11週 |
5/1 |
Lecture: Lecture: Food-web models (2)
Practice: Mid-term revisit |
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第12週 |
5/8 |
Lecture: Lecture: Food-web models (3)
Practice: Self-promoted random exercise |
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第13週 |
5/15 |
Lecture: Spatio-temporal aspects of food webs
Practice: Self-promoted random exercise |
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第14週 |
5/22 |
Lecture: Real-world applications of ecological network studies
Practice: Self-promoted random exercise
Assign: Take-home final exam
Hand in: Reading assignment 2 |
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第15週 |
5/29 |
Activity: Group paper discussion 2
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第16週 |
6/5 |
Lecture: Summary, synthesis, and feedback
Hand in: Take-home final exam |
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