The Problem the Undertaker Pattern

Applying undertaker cost functions to model quality assessment.

Undertaker is a program designed to help predict protein structure using alignments to proteins of known structure and fragment assembly. The program generates conformations and uses cost functions to select the best structures from among the generated conformations. This paper describes the use of Undertaker's cost functions for model quality assessment. We achieve an accuracy that is similar ...

Combining local-structure, fold-recognition, and new fold methods for protein structure prediction.

This article presents an overview of the SAM-T02 method for protein fold recognition and the UNDERTAKER program for ab initio predictions. The SAM-T02 server is an automatic method that uses two-track hidden Markov models (HMMS) to find and align template proteins from PDB to the target protein. The two-track HMMs use an amino acid alphabet and one of several different local structure alphabets...

Waste Collection Vehicle Routing Problem Considering Similarity Pattern of Trashcan

Collection of waste is an important logistic activity within any city. In this study, a mathematical model is proposed in order to reduce the cost of waste collection. First a mixed-integer nonlinear programming model is provided including a waste collection routing problem, so that, there is a balance between the distance between trashcans, and the similarity of the trashcans in terms of th...

 Abstract: Packing rectangular shapes into a rectangular space is one of the most important discussions on Cutting & Packing problems (C;P) such as: cutting problem, bin-packing problem and distributor's pallet loading problem, etc. Assume a set of rectangular pieces with specific lengths, widths and utility values. Also assume a rectangular packing space with specific width and length. The obj...

Using Pattern Search Algorithm and Finite Element Method to Detect Rotor Cracks

The vibration pattern of a rotor system reflects the mechanical parameter changes in the system. Hence, the use of vibration monitoring is considered as a possible means of detecting the presence and growth of the cracks. In this paper, a pattern search based method for shaft crack detection is proposed and described which formulates the shaft crack detection as an optimization problem by means...