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"Tree Based Of Consistency Objective Function For Evaluation Alignment (T-COFFEE) merupakan algoritma untuk menyelesaikan permasalahan multiple sequence alignment (MSA). Algoritma ini menggabungkan dua teknik, pertama Tree Based yang merupakan Progressive Alignment dan kedua Consistency Objective Function berupa extending library. Pada pembahasan skripsi ini akan digunakan data sequence dari database ensembl yang terdiri dari database DNA atau protein yang akan diproses dengan global alignment (Needleman-Wunsch) dan local alignment (Smith- Waterman) dengan harapan informasi yang dihasilkan pada akhir pensejajaran akan menggambarkan hasil penyejajaran yang optimal. Proses pembentukan primary dan extended library pada T-COFFEE membutuhkan waktu lama sehingga untuk mempercepat waktu proses T-COFFEE digunakan teknik komputasi paralel Graphic Processing Unit (GPU). Skripsi ini akan menjelaskan algoritma T-COFFEE, algoritma paralel T-COFFEE, serta mengukur efisiensi dari kedua algoritma tersebut.

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Tree Based Of Consistency Objective Function For Evaluation Alignment (T-COFFEE) is an algorithm to solve the problem of multiple sequence alignment (MSA). This algorithm combines two techniques, first is Tree-Based with Progressive Alignment and second is Consistency of Objective Function by extending library. In this skripsi, we use the data from the ensembl database that consisting of DNA or protein data. Those data will be processed by the global alignment (Needleman-Wunsch) and local alignment (Smith-Waterman) that is expected to give optimal alignment result at the end of the alignment process. The generating of Primary and Extended Library is the most time consuming, hence to speed up the T-COFFEE process, a parallel version of T-COFFEE algorithm is needed by implementing parallel computing on Graphic Processing Unit (GPU). In this skripsi, the T-COFFEE algorithm, the parallel T-COFFEE algorithm, and the measurement of their speed up and efficiency will be discuss."

"This book constitutes thoroughly refereed post-conference proceedings of the workshops of the 17th International Conference on Parallel Computing, Euro-Par 2011, held in Bordeaux, France, in August 2011. The papers of these 12 workshops CCPI, CGWS, HeteroPar, HiBB, HPCVirt, HPPC, HPSS HPCF, PROPER, CCPI, and VHPC focus on promotion and advancement of all aspects of parallel and distributed computing."

"The two volume set LNCS 7133 and LNCS 7134 constitutes the thoroughly refereed post-conference proceedings of the 10th International Conference on Applied Parallel and Scientific Computing, PARA 2010, held in Reykjavík, Iceland, in June 2010. These volumes contain three keynote lectures, 29 revised papers and 45 minisymposia presentations arranged on the following topics: cloud computing, HPC algorithms, HPC programming tools, HPC in meteorology, parallel numerical algorithms, parallel computing in physics, scientific computing tools, HPC software engineering, simulations of atomic scale systems, tools and environments for accelerator based computational biomedicine, GPU computing, high performance computing interval methods, real-time access and processing of large data sets, linear algebra algorithms and software for multicore and hybrid architectures in honor of Fred Gustavson on his 75th birthday, memory and multicore issues in scientific computing, theory and praxis, multicore algorithms and implementations for application problems, fast PDE solvers and a posteriori error estimates, and scalable tools for high performance computing."

"The two volume set LNCS 7133 and LNCS 7134 constitutes the thoroughly refereed post-conference proceedings of the 10th International Conference on Applied Parallel and Scientific Computing, PARA 2010, held in Reykjavík, Iceland, in June 2010. These volumes contain three keynote lectures, 29 revised papers and 45 minisymposia presentations arranged on the following topics: cloud computing, HPC algorithms, HPC programming tools, HPC in meteorology, parallel numerical algorithms, parallel computing in physics, scientific computing tools, HPC software engineering, simulations of atomic scale systems, tools and environments for accelerator based computational biomedicine, GPU computing, high performance computing interval methods, real-time access and processing of large data sets, linear algebra algorithms and software for multicore and hybrid architectures in honor of Fred Gustavson on his 75th birthday, memory and multicore issues in scientific computing, theory and praxis, multicore algorithms and implementations for application problems, fast PDE solvers and a posteriori error estimates, and scalable tools for high performance computing."

"Scientific computing has often been called the third approach to scientific discovery, emerging as a peer to experimentation and theory. Historically, the synergy between experimentation and theory has been well understood: experiments give insight into possible theories, theories inspire experiments, experiments reinforce or invalidate theories, and so on. As scientific computing has evolved to produce results that meet or exceed the quality of experimental and theoretical results, it has become indispensable.Parallel processing has been an enabling technology in scientific computing for more than 20 years. This book is the first in-depth discussion of parallel computing in 10 years; it reflects the mix of topics that mathematicians, computer scientists, and computational scientists focus on to make parallel processing effective for scientific problems. Presently, the impact of parallel processing on scientific computing varies greatly across disciplines, but it plays a vital role in most problem domains and is absolutely essential in many of them. Parallel Processing for Scientific Computing is divided into four parts: The first concerns performance modeling, analysis, and optimization; the second focuses on parallel algorithms and software for an array of problems common to many modeling and simulation applications; the third emphasizes tools and environments that can ease and enhance the process of application development; and the fourth provides a sampling of applications that require parallel computing for scaling to solve larger and realistic models that can advance science and engineering."