Publications
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UCSF Chimera—A visualization system for exploratory research and analysis
Abstract The design, implementation, and capabilities of an extensible visualization system, UCSF Chimera, are discussed. Chimera is segmented into a core that provides basic se...
Particle swarm optimization
The base isolation design usually used the historical well-known earthquake records as an input ground motion. Through the adjustment on each variables of the structure system, ...
Going deeper with convolutions
We propose a deep convolutional neural network architecture codenamed Inception that achieves the new state of the art for classification and detection in the ImageNet Large-Sca...
Preferred reporting items for systematic reviews and meta-analyses: the PRISMA Statement.
Systematic reviews and meta-analyses have become increasingly important in health care. Clinicians read them to keep up to date with their field,1,2 and they are often used as a...
A fast and elitist multiobjective genetic algorithm: NSGA-II
Multi-objective evolutionary algorithms (MOEAs) that use non-dominated sorting and sharing have been criticized mainly for: (1) their O(MN/sup 3/) computational complexity (wher...
EMBI
Requirements are an integral part of industry operation and projects. Not only do requirements dictate industrial operations, but they are used in legally binding contracts betw...
MUSCLE: multiple sequence alignment with high accuracy and high throughput
We describe MUSCLE, a new computer program for creating multiple alignments of protein sequences. Elements of the algorithm include fast distance estimation using kmer counting,...
MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability
We report a major update of the MAFFT multiple sequence alignment program. This version has several new features, including options for adding unaligned sequences into an existi...
Optimization by Simulated Annealing
There is a deep and useful connection between statistical mechanics (the behavior of systems with many degrees of freedom in thermal equilibrium at a finite temperature) and mul...