Presentation
file |
introducer |
date |
paper |
video |
Ayelet Butman, Revital
Eres, Gad M.Landau, "Scaled and Permuted String Matching",Information
Processing Letters 92 (2004) 293-297 |
王仁暉 |
Jan. 05 |
 |
|
Pavel A. Pevzner, Haixu Tang, "Fragment assembly
with double-barreled data",BIOINFORMATICS, Vol. 17, Suppl.1, Pages
S225–S233, 2001 |
高茂源 |
Jan. 13 |
 |
|
Emidio Capriotti, Piero Fariselli, Remo Calabrese and Rita
Casadio,"Predicting protein stability changes from sequences using support
vector machines", BIOINFORMATICS, Vol. 21, Suppl.2 2005 ,Pages 54–58, 2001 |
林俊雄 |
Jan. 13 |
 |
|
J.Y. Guo and F.K.
Wang,"An almost linear time and linear space algorithm for the longest
common subsequence problem",Information Processing Letters 94 (2005) 131–135 |
彭永興 |
Jan. 19 |
 |
|
Chang-Biau Yang,
Yun-Jaw Yeh,"On the Traffic Light Timing Setting Problem"
|
董建甫 |
Feb. 10 |
 |
|
Markus Bläser,"An 8/13-approximation algorithm for the asymmetric
maximum TSP",Journal of Algorithms 50 (2004) 23–48 |
安興彥 |
Feb. 17 |
 |
|
Jeff Abrahamson, Ali
Shokoufandeh, Pawel Winter,"Euclidean TSP Between Two Nested Convex Obstacles",Information Processing Letters, (95) 370–375, 2005. |
陳宣文 |
Feb. 17 |
 |
|
I-Hsuan Yang a,
Chien-Pin Huang a, Kun-Mao Chao a,b,"A fast algorithm for computing a longest common increasing
subsequence",Information Processing Letters 93 (2005) 249–253 |
王仁暉 |
Feb. 17 |
 |
|
Haim Kaplan, Nira Shafrir,"The greedy algorithm for edit distance with moves",Information Processing Letters 97 (2006) 23–27 |
高茂源 |
Feb. 24 |
 |
|
Walter A. Burkhard,"Double hashing with passbits",Information Processing Letters 96 (2005) 162–166
|
林俊雄 |
Feb. 24 |
 |
|
Tolga Can, Yuan-Fang
Wang,"CTSS: A Robust and Efficient Method for Protein Structure Alignment Based on Local Geometrical and Biological Features",Proceedings of the Computational Systems Bioinformatics (CSB’03) 0-7695-2000-6/03 2003 IEEE
|
羅裕傑 |
Mar. 03 |
 |
|
(Ben) P.C. Li, M. Toulouse, "Variations of the maximum leaf spanning tree problem for bipartite graphs", Information Processing Letters 97 (2006) 129–132
|
陳宣文 |
Mar. 10 |
 |
|
Kuan-Yu Chen a, Kun-Mao
Chao, "Optimal algorithms for locating the longest and shortest segments satisfying a sum or an average constraint", Information Processing Letters 96 (2005) 197–201
|
王仁暉 |
Mar. 17 |
 |
|
F.
Carrabs, R. Cerulli M. Gentili , G. Parlato, "A linear time algorithm for the minimum Weighted Feedback Vertex Set on diamonds", Information Processing Letters 94 (2005) 29–35
|
林俊雄 |
Mar. 24 |
 |
|
JamesW. Anderson · Keith R. Fox · Graham A.
Niblo, "A fast algorithm for the construction of universal footprinting templates in DNA", Journal of Mathematical Biology Volume 52, Number 3, Pages 307-342, 2006
|
林旭紳 |
Mar. 24 |
 |
|
Mark Weston, "A fixed-parameter tractable algorithm for matrix domination", Information Processing Letters 90 (2004) 267–272
|
高茂源 |
Mar. 31 |
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|
Sung Kwon Kim, "Finding a longest nonnegative path in a constant degree tree", Information Processing Letters 93 (2005) 275–279
|
陳宣文 |
Mar. 31 |
|
|
Amir, Apostolico and Lewenstein,"Inverse Pattern Matching", Journal of Algorithms, Vol. 24, pp. 325-339, 1997
|
安興彥 |
Apr. 22 |
|
|
Protein Tertiary Structure Prediction(聯合meeting)
|
邢金良 |
Apr. 26 |
|
|
An Efficient Algorithm for Determining Protein Structure Similarity(聯合meeting)
|
羅裕傑 |
Apr. 26 |
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|
Justin Colannino, Godfried Toussaint,"An algorithm for computing the restriction scaffold assignment problem in computational biology", Information Processing Letters 95 (2005) 466–471
|
王仁暉 |
May 04 |
|
|
Udi Manber and Gene Myers,"Suffix arrays: A new method for on-line string searches", SIAM Journal on Computing, vol. 22(5), pp. 935–948, 1993
|
彭永興 |
May 04 |
|
|
Pradipta Prometheus
Mitra, Muhammad Arshad Ul Abedin,
Md. Abul Kashem,"Algorithms for solving the symmetry number on trees", Information Processing Letters 91 (2004) 163–169
|
高茂源 |
May 04 |
|
|
Abraham P.
Punnen, Olena Chapovska,"The Bottleneck k-MST", Information Processing Letters 95(2005) 512-517
|
林俊雄 |
May 11 |
|
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Yangjun Chen, Yibin Chen,"A new tree inclusion algorithm", Information Processing Letters 98 (2006) 253–262
|
陳宣文 |
May 11 |
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|
F.
Ergun, S. Muthukrishnan and S. C. Sahinalp,"Comparing Sequences with Segment Rearrangements", FST TCS 2003: Foundations of software technology and theoretical computer science, Vol. 2914 of Lecture Notes in Computer Science, pp. 183-194, 2003
|
安興彥 |
May 18 |
|
|
Amir
Ben-Dor, Richard M. Karp, Benno Schwikowski, Ron Shamir,"The Restriction Scaffold Problem", J.
Comput. Biol. 10(2) (2003) 385-398
|
王仁暉 |
May 18 |
|
|
Owen Kaser,"Compressing Arrays by Ordering Attribute Values", Information Processing Letters 92 (2004) 253–256
|
高茂源 |
May 18 |
|
|
Hélène Touzet,"Tree Edit Distance with Gaps", Information Processing Letters 85 (2003) 123–129
|
陳宣文 |
May 25 |
|
|
Daniel
Berend, Amir Sapir,"The Diameter of Hanoi Graphs", Information Processing Letters 98(2006) 79-85
|
林俊雄 |
May 25 |
|
|
Mohamed Ibrahim
Abouelhoda, Enno Ohlebusch, and Stefan Kurtz,"Optimal exact string matching based on suffix arrays", International Symposium on String Processing and Information Retrieval, pp. 31-43, 2002
|
彭永興 |
May 25 |
|
|
Yu-Dong Cai, Xiao-Jun Liu, Xue-biao
Xu, Kuo-Chen Chou,"Prediction of protein structural classes by support vector machines", Computers and Chemistry 26 (2002) 293–296
|
王仁暉 |
Jun. 15 |
|
|
Kazuhisa Makino, Takashi Takabatake, Satoru Fujishige,"A Simple Matching Algorithm for Regular Bipartite Graphs", Information Processing Letters 84 (2002) 189–193
|
高茂源 |
Jun. 15 |
|
|
Haim Kaplan, Nira Shafrir,"The Greedy Algorithm for Edit Distance with Moves", Information Processing Letters, Vol. 97, pp. 23–27, 2006
|
安興彥 |
Jun. 22 |
|
|
Mohammad Hosseini
Dolama, Éric Sopena,"On the Oriented Chromatic Number of Halin Graphs", Information Processing Letters 98(2006) 247-252
|
林俊雄 |
Jun. 22 |
|
|
CHRISTOPHER J.C. BURGES, "A Tutorial on Support Vector Machines for Pattern Recognition", Data Mining and Knowledge Discovery, 2, 121–167 (1998)
|
陳宣文 |
Jun. 22 |
|
|
Maxime
Crochemore, Costas S. Iliopoulos, Yoan J. Pinzon, James F. Reid,"A Fast and Practical Bit-Vector Algorithm for the Longest Common Subsequence Problem", Information Processing Letters 80 (2001) 279–285
|
高茂源 |
Jun. 29 |
|
|
M. Kano, C. Merinob, J. Urrutiab, "On Plane Spanning Trees and Cycles of
Multicolored Point Sets with Few Intersections", Information Processing
Letters 93(2005) 301-306 |
林俊雄 |
Jul. 13 |
 |
|
Yu-Dong Cai, Guo-Ping
Zhou, Kuo-Chen Chou, "Support Vector Machines for Predicting Membrane Protein
Types by Using Functional Domain Composition", Biophysical Journal Volume 84
May 2003 3257–3263 |
王仁暉 |
Jul. 13 |
 |
|
Graham Cormodc, S. Muthukrishnan, "The String Edit Distance Matching Problem
with Moves", Proceedings of the thirteenth annual ACM-SIAM symposium on
Discrete algorithms, pp. 667-676, 2002 |
安興彥 |
Jul. 19 |
 |
|
Sebastian Deorowicz,"Speeding up transposition-invariant string matching",
Information Processing Letters, In Press, Corrected Proof, Available online
12 June 2006 |
陳宣文 |
Jul. 19 |
 |
|
Yoriko Iwata, Atsushi
Kasuya, Shuichi Miyamoto, "An efficient method for reconstructing protein
backbones from α–carbon coordinates",Journal of Molecular Graphics and
Modelling 21 (2002) 119–128 |
王仁暉 |
Jul. 26 |
 |
|
Shisheng Li , Guangzhong Sun, Guoliang Chen, "Improved Algorithm for Finding
Next-to-Shortest Paths",Information Processing Letters 99 (2006) 192–194 |
高茂源 |
Jul. 26 |
 |
|
Amihood Amir,
Martin Farach, S. Muthukrishnan, "Alphabet dependence parameterized
matching", Information Processing Letters 49, pp. 111-115, 1994 |
彭永興 |
Aug. 03 |
 |
|
Jie Wu, "Adaptive Fault-Tolerant Routing in Cube-Based Multicomputers Using
Safety Vectors", IEEE TRANSACTIONS ON PARALLEL AND DISTRIBUTED SYSTEMS, VOL.
9. NO. 4, APRIL 1998 |
邱喬偉 |
Aug. 03 |
 |
|
J. J. Ward, L. J. McGuffin, B. F. Buxton and D. T. Jones, "Secondary
Structure Prediction with Support Vector Machines", BIOINFORMATICS, Vol. 19,
no.13 ,Pages 1650–1655, 2003 |
林俊雄 |
Aug. 03 |
 |
|
T. Kalganova, G.Russell, A. Cumming, "Multiple Traffic Signal Control Using
a Genetic Algorithm", Proc. of the Fourth International Conference on
Artificial Neural Networks and Genetic Algorithms (ICANNGA'99). Portoroz,
Slovenia. pp. 220-228. (1999) |
陳宣文 |
Aug. 17 |
 |
|
Saravanan Dayalan,
Savitri Bevinakoppa, Heiko Schroder, "A Dihedral Angle Database of Short
Sub-Sequences for Protein Structure Prediction", The 2nd Asia-Pacific
Bioinformatics Conference Vol. 29 (2004) 131-137 |
王仁暉 |
Aug.17 |
 |
|
Amihood
Amir, Moshe Lewenstin, Ely Porat, "Faster Algorithm for String Matching with k Mismatches",
Journal of Algorithms, Vol. 50, 2004, pp. 257-275 |
安興彥 |
Aug. 17 |
 |
|
Long-Hui Wang, Juan Liu, Yan-Fu Li, Huai-Bei Zhou, "Predicting Protein
Secondary Structure by a Support Vector Machine Based on a New Coding
Scheme", Genome Informatics 15(2): 181–190 (2004) |
林俊雄 |
Aug. 24 |
 |
|
George Tzanetakis, "Tempo Extraction using Beat Histograms", University of
Victoria
Computer Science Department (also in Music) |
高茂源 |
Aug. 24 |
 |
|
Wojciech
Rytter, "On maximal suffixes and constant-space linear-time versions of KMP
algorithm", Theoretical Computer Science 299, pp. 763-774, 2003 |
彭永興 |
Aug. 31 |
 |
|
DING-WEI HUANG and WEI-NENG HUANG, "Optimization of Traffic Lights at
Crossroads", International Journal of Modern Physics C Vol. 14, No. 5 (2003)
539-548 |
陳宣文 |
Aug. 31 |
 |
|
Xiaojing Yu, Jianping Cao, Yudong Cai, Tieliu Shi, Yixue Li, "Predicting rRNA-, RNA-, and DNA-binding proteins from primary structure with support vector machines",
Journal of Theoretical Biology, 2005 |
張小燕 |
Aug. 31 |
 |
|
MARIUSZ MILIK, ANDRZEJ
KOLINSKI, and JEFFREY SKOLNICK, "Algorithm for Rapid Reconstruction of Protein Backbone from Alpha Carbon Coordinates", Journal of Computational Chemistry, Vol. 18, No. 1, 80-85 (1997) |
王仁暉 |
Sept. 07 |
 |
|
Miguel A. ALONSO, Bertrand DAVID and Gael RICHARD, "Tempo and Beat Estimation
of Music Signals", ISMIR 2004 5th International Conference on Music Information Retrieval |
高茂源 |
Sept. 07 |
 |
 |
Sheng-I
Yeh, Chang-Biau Yang, Hon-Chan Chen, Kuo-Si Huang, "The Design of Safety Vectors on the Star Graph"
|
邱喬偉 |
Sept. 07 |
|
|
Jian
Guo, Hu Chen, Zhirong Sun, and Yuanlie Lin, "A Novel Method for Protein Secondary Structure Prediction Using Dual-Layer SVM and Profiles", PROTEINS: Structure, Function, and Bioinformatics 54:738–743 (2004) |
林俊雄 |
Sept. 14 |
 |
|
D. K. Kim, J. C. Na, J. E. Kim and K. Park, “Efficient Implementation of Rank and Select Functions for Succinct Representation," Workshop on Experimental and Efficient Algorithms 2005, pp. 315-327.
|
曾球庭 |
Sept. 14 |
|
|
Amir,
Aumann, Landau, M. Lewenstein, N. Lewenstein, "Pattern Matching with Swaps", Journal of Algorithms, Vol. 37, 2000, pp. 247-266
|
安興彥 |
Sept. 21 |
|
|
M. Ebrahim Fouladvand and Masoud
Nematollahi, "Optimization of Green-Times at an Isolated Urban Crossroads", The European Physical Journal B, Vol. 22 pp. 395-401 (2001) |
陳宣文 |
Sept. 21 |
 |
 |
Ali
Sezgin, Ganesh Gopalakrishnan, "On the Definition of Sequential Consistency", Information Processing Letters 96 (2005) 193–196 |
張嘉宏 |
Sept. 21 |
 |
 |
RAJMUND KAZ´
MIERKIEWICZ, ADAM LIWO, HAROLD A. SCHERAGA, "Energy-Based Reconstruction of a Protein Backbone from its α-Carbon Trace by a Monte-Carlo Method", J Comput Chem 23: 715–723, 2002 |
王仁暉 |
Sept. 28 |
 |
 |
Geoffroy Peeters, "Tempo Detection and Beat Marking for Perceptual Tempo Induction", MIREX 2005 |
高茂源 |
Sept. 28 |
 |
 |
Adam
Zemla, Ceslovas Venclovas, Krzysztof Fidelis, and Burkhard Rost, "A Modified Definition of
Sov, a Segment-Based Measure for Protein Secondary Structure Prediction Assessment", Structure, Function, and Genetics 34:220–223 (1999)
|
蔣宗翰 |
Sept. 28 |
|
 |
Wolfgang
Kabsch, Christian Sander, "Dictionary of Protein Secondary Structure: Pattern Recognition of Hydrogen-Bonded and Geometrical Features",
BIOINFORMATICS, Vol. 22, no.12 ,Pages 2577–2637, 1983 |
林俊雄 |
Oct. 12 |
 |
|
INNA
DUBCHAK, ILYA MUCHNIK, STEPHEN R. HOLBROOK,AND SUNG-HOU KIM, "Prediction of protein folding class using global description of amino acid sequence", Proc. Natl. Acad.
Sci. USA Vol. 92, pp. 8700-8704, September 1995
|
張小燕 |
Oct. 12 |
|
|
Wun-Tat Chan, Yong Zhang, Stanley P. Y.
Fung, Deshi Ye, Hong Zhu, "Efficient Algorithms for Finding a Longest Common Increasing Subsequence", ISAAC, pp. 665-674, 2005
|
曾球庭 |
Oct. 19 |
|
 |
M. Ebrahim Fouladvand
,Nima Hamedani Radja, "Optimized Traffic Flow at a Single Urban Crossroads: Dynamical Symmetry Breaking", Technical Report:
IPM/P-2001/039,
Institute for Studies in Theoretical Physics and Mathematics (IPM), 2001 |
陳宣文 |
Oct. 19 |
 |
 |
Haim
Kaplen, Nira Shafrir, "The Greedy Algorithm for Shortest Superstrings", Information Processing Letters 93(2005) 13-17 |
邱喬偉 |
Oct. 19 |
 |
 |
A.C.Camproux,
P.Tuffery, J.P.Chevrolat, J.F.Boisvieux, S.Hazout, "Hidden Markov model approach for identifying the modular framework of the protein backbone", Protein Engineering vol.12 no.12 pp.1063–1073, 1999 |
王仁暉 |
Oct. 27 |
 |
|
Martin F. McKinney, Dirk
Moelants, "Deviations from the resonance theory of tempo induction", CIM04 - Conference on Interdisciplinary Musicology - Proceedings |
高茂源 |
Oct. 27 |
 |
 |
Xuehou Tan, "A 2-approximation algorithm for the zookeeper’s problem", Information Processing Letters 100 (2006) 183–187 |
蔣宗翰 |
Nov. 02 |
 |
 |
Xuehou Tan, "Shortest zookeeper’s routes in simple polygons", Information Processing Letters 77 (2001) 23–26 |
張嘉宏 |
Nov. 02 |
 |
 |
Qidong Zhang, Sukjoon Yoon and William J. Welsh, "Improved Method for Predicting
ß-turn Using Support Vector Machine", Bioinformatics Vol.21 no.10 2005, pages 2370-2374 |
林俊雄 |
Nov. 02 |
 |
 |
Peter
Lackner, Walter A. Koppensteiner, Manfred J. Sippl and Francisco S.
Domingues, "ProSup: a Refined Tool for Protein Structure Alignment ", Protein Engineering, Vol. 13, No. 11, 745-752, November 2000 |
陳宣文 |
Nov. 09 |
 |
 |
Liisa Holm, Chris Sander, "Protein Structure Comparison by Alignment of Distance Matrices", Journal of molecular biology 233: 123-138, 1993 |
高茂源 |
Nov. 09 |
 |
|
Classification of protein structure |
王仁暉 |
Nov. 09 |
|
 |
Protein Secondary Structure and Paper
Comparison |
林俊雄 |
Nov. 09 |
|
 |
Jakob Hull
Havgaard, Rune B. Lyngso, Gary D. Stormo and Jan Gorodkin, "Pairwise local structural alignment of RNA sequences with sequence similarity less than 40%",
Bioinformatics, Vol. 21 no. 9 2005, pages 1815–1824 |
張小燕 |
Nov. 16 |
|
 |
O. Dror ,H. Benyamini ,R. Nussinov ,and H.
Wolfson, "MASS: multiple structural alignment by secondary structures", Bioinformatics (2003), 19:i94-i104 |
蔣宗翰 |
Nov. 16 |
|
 |
VALENTIN A.
ILYIN, ALEXEJ ABYZOV, AND CHESLEY M. LESLIN, "Structural alignment of proteins by a novel TOPOFIT method, as a superimposition of common volumes at a topomax point", Protein Science (2004), 13:1865–1874. |
張嘉宏 |
Nov. 16 |
|
 |
Yang Zhang and Jeffrey Skolnick, "TM-align: a protein structure alignment algorithm based on the TM-score", 2302–2309 Nucleic Acids Research, 2005, Vol. 33, No. 7 |
邱喬偉 |
Nov. 16 |
|
 |
Scott
Montgomerie, Shan Sundararaj, Warren J Gallin and David S Wishart, "Improving the accuracy of protein secondary structure prediction using structural alignment", BMC Bioinformatics 2006, Vol. 7, Num. 301 |
彭永興 |
Nov. 23 |
|
 |
D. Zhi, S. S. Krishna, H.
Cao, P. Pevzner, and A. Godzik, "Representing and Comparing Protein Structures as Paths in Three-dimensional Space", BMC
Bioinformatics, Vol. 7, pp. 460-474, 2006 |
曾球庭 |
Nov. 23 |
|
 |
Kengo Sato and Yasubumi
Sakakibara, "RNA Secondary Structural Alignment with Conditional Random Fields",
Bioinformatics, Vol. 21, Suppl. 2, pp. ii237–ii242, 2005 |
安興彥 |
Nov. 23 |
|
 |
Daron M
Standley, Hiroyuki Toh, and Haruki Naka, "GASH: An improved algorithm for maximizing the number of equivalent residues between two protein structures", BMC
Bioinformatics, Vol. 6:221, Sept. 8, 2005 |
黃國璽 |
Nov. 23 |
|
 |
Krzysztof
Ginalski, Arne Elofsson, Daniel Fischer and Leszek Rychlewski, 3D-Jury: A Simple Approach to Improve Protein Structure Predictions,
Bioinformatics, Vol. 19, No.8, pp. 1015–1018, 2003 |
陳宣文 |
Nov. 30 |
|
 |
Weizhong Li , Lukasz Jaroszewski and Adam
Godzik, "Clustering of Highly Homologous Sequences to Reduce the Size of Large Protein Databases",
BIOINFORMATICS,Vol. 17, no. 3 2001, Pages 282–283 |
高茂源 |
Nov. 30 |
|
 |
David T. Jones, "Protein Secondary Structure Prediction Based on Position-Specific Scoring Matrices", J. Mol. Biol. (1999) 292, pages 195-202 |
林俊雄 |
Nov. 30 |
|
 |
James A. Cuff and Geoffrey J. Barton, "Application of Multiple Sequence Alignment Profiles to Improve Protein Secondary Structure Prediction", Structure, Function, and Genetics 40:502–511 (2000) |
王仁暉 |
Nov. 30 |
|
 |
Ilya N. Shindyalov and Philip E. Bourne, "Protein Structure Alignment by Incremental Combinatorial Extension (CE) of the Optimal Path", Protein Engineering vol.11 no.9 pp.739-747, 1998 |
張小燕 |
Dec. 14 |
|
|
Tatsuya
Akutsu, Kim Lan Sim, "Protein Threading Based on Multiple Protein Structure Alignment", Human Genome Center, Institute of Medical Science, University of Tokyo
4-6-1 Shirokanedai, Minato-ku, Tokyo 108-8639, Japan |
蔣宗翰 |
Dec. 14 |
|
 |
Raj K. Singh, Alexander Tropsha and Iosif I.
Vaisman, "Delaunay Tessellation of Proteins:Four Body Nearest Neighbor Propensities of Amino Acid Residues", J.
Comput. Biol. 1996, 3, 2, 213-222 |
張嘉宏 |
Dec. 14 |
|
 |
H. Bunke and J.
Csirik, "An Improved Algorithm for Computing the Edit Distance of Run-Length Coded Strings", Information Processing Letters, Vol. 54, 1995, pp. 93–96
|
安興彥 |
Dec. 21 |
|
 |
Emad
Elbeltagi, Tarek Hegazy and Donald Grierson, "Comparison among five evolutionary-based optimization algorithms", Advanced Engineering Informatics, vol. 19, pp. 43-53, 2005 |
彭永興 |
Dec. 21 |
|
 |
Long Lu, Hui Lu, and Jeffrey Skolnick,
"MULTIPROSPECTOR: An Algorithm for the Prediction of Protein-protein Interactions by Multimeric Threading", PROTEINS: Structure, Function, and Genetics 49:350–364 (2002)
|
邱喬偉 |
Dec. 21 |
|
 |
Fangting Sun, David Fernandez-Baca and Wei Yu, "Inverse Parametric Sequence Alignment", J. Algorithms, Vol. 53, No. 1, pp. 36-54, 2004 |
曾球庭 |
Dec. 28 |
|
 |
Elmar
Brockfeld, Robert Barlovic, Andreas Schadschneider and Michael
Schreckenberg, "Optimizing Traffic Lights in a Cellular Automaton Model for City Traffic", Physical Review E, Vol. 64, No. 056132, 2001 |
陳宣文 |
Dec. 28 |
|
 |
H. Abdi, "A Neural Network Primer", Journal of Biological Systems, Vol. 2(3), pp. 247-283, (1994) |
王仁暉 |
Dec. 28 |
|
 |