臺灣博碩士論文加值系統

非線性的力參數在參數化是目前計算化學的重大難題，由於非線性的最佳化方法可以產生的錯誤極多。雖然我們可以選擇用線性的最佳化方法，但是如果用在非線性的力參數上，會有系統上的誤差。本文希望提供一個升級過的
自適應力批配演算法(Adaptive Force Matching Method,AFMM)來處理此問題，並以液態水的分子模擬計算作為驗證。初步測驗，包含徑向分布函數以及平均力勢計算實驗，顯示結果有部分地被改良。本文產生的簡單點電荷模組力參數，提供更正確的第一溶劑殼，以及更準確地描述成對力。然而，這些優勢也帶來了一些缺點，本文產生的力參數無法提供正確的第二溶劑殼，也同時完全放棄多體效應。目前已有文獻提出簡單點電荷模組無法完整的描述
液態水的性質，例如第一溶劑殼及第二溶劑殼，本研究試圖在此方面提供更徹底的探討。

On the subject of force field re-parameterization, the Annual Reports in Computational Chemistry, Volume 10 stated that “Non-linear optimization is a grand challenge.” Indeed, the complication and errors of such a non-linear method is not easily fixed. Although linear methods can be used instead, this is at the cost of less precise results. To tackle this issue,an upgraded Adaptive Force Matching Method (AFMM) is proposed based on testing with liquid water model. Preliminary results from radial distribution functions and potential of mean force calculations suggest a partially improved result from previous experiments.It would seem that the generated simple point charge water force field from AFMM, has a better first solvation shell, and a better pair-wise force description. This, however, came at the cost of a poorer second solvation shell fit, and a forfeit of many-body effects. It has been shown that a simple point charge model of water cannot effectively cover both solvation shell, and this work may provide additional insight on the matter.

Table of Figures 3
中文摘要 4
Abstract 5
Chapter 1 Introduction 6
Chapter 2 Methodology 9
2-1. The Adaptive Force-Matching Method 9
2-1-1. Step 1: Force Field Validation 9
2-1-2. Step 2: Molecular Dynamic Simulation 10
2-1-3. Step 3: Snapshot Sampling. 11
2-1-4. Step 4: QM/MM Force Calculations 12
2-1-5. Step 5: Data Weighting 12
2-1-6. Step 6: Force Matching 13
2-2. Radial Distribution Function 14
2-3. Potential of Mean Force 15
Chapter 3 Results & Discussion 17
3-1. The Generated Force Fields 17
3-2. Radial Distribution Function 23
3-2-1. Oxygen-Oxygen RDF 23
3-2-2. Hydrogen- Hydrogen RDF 25
3-2-3. Oxygen-Hydrogen RDF 26
3-3. Cluster Energy Calculation 27
3-3-1. Energy Component Analysis 28
3-4. Potential of Mean Force 29
3-5. Slab Integrity 33
Chapter 4 Conclusion 35
Chapter 5 References 36

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