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SwapscThe SWAPSC package, or Sliding Window Analysis Procedure for detecting Selective Constraints, is a computer software system, published in May 2004, for analyzing genetic data structured for a biological family tree, or phylogenetic tree.[1] The genetic data is analyzed for constraints in protein-coding sequence alignments. Additional recommended knowledgeSWAPSC is used to dissect the constraints on the evolution of protein-coding genes.[1] The software estimates rates of the nucleotide substitutions along specific codon regions within each branch of a phylogenetic tree. The program uses many sets of simulated sequence alignments when estimating the probabilities of synonymous and non-synonymous nucleotide substitutions. Afterward, the software conducts a statistical analysis to determine the optimum window size for detecting selective constraints.[1] Finally, the optimum window size is slid along the real alignment, and a test is conducted to rate significance of the estimated number of synonymous and non-synonymous nucleotide substitutions within each sliding step.[1] The software system generates several user-friendly output files.[1] SWAPSC has been implemented to run on either Microsoft Windows or Linux platforms.[1] Availability: SWAPSC is available at:
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Categories: Genetic algorithms | Genetic programming |
This article is licensed under the GNU Free Documentation License. It uses material from the Wikipedia article "Swapsc". A list of authors is available in Wikipedia. |