The CIPRES science gateway: a community resource for phylogenetic analyses
Proceedings of the 2011 TeraGrid Conference: Extreme Digital Discovery
Proceedings of the 1st Conference of the Extreme Science and Engineering Discovery Environment: Bridging from the eXtreme to the campus and beyond
A Provenance-based Adaptive Scheduling Heuristic for Parallel Scientific Workflows in Clouds
Journal of Grid Computing
Embedding CIPRES science gateway capabilities in phylogenetics software environments
Proceedings of the Conference on Extreme Science and Engineering Discovery Environment: Gateway to Discovery
Performance evaluation of parallel strategies in public clouds: A study with phylogenomic workflows
Future Generation Computer Systems
| Hi-index | 3.84 |
Summary: Multiple sequence alignment (MSA) is an important step in comparative sequence analyses. Parallelization is a key technique for reducing the time required for large-scale sequence analyses. The three calculation stages, all-to-all comparison, progressive alignment and iterative refinement, of the MAFFT MSA program were parallelized using the POSIX Threads library. Two natural parallelization strategies (best-first and simple hill-climbing) were implemented for the iterative refinement stage. Based on comparisons of the objective scores and benchmark scores between the two approaches, we selected a simple hill-climbing approach as the default. Availability: The parallelized version of MAFFT is available at http://mafft.cbrc.jp/alignment/software/. This version currently supports the Linux operating system only. Contact: kazutaka.katoh@aist.go.jp Supplementary information:Supplementary data are available at Bioinformatics online.