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SALVADOR 2.0: A Tool for Fluctuation Analysis
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| Organization: | Texas A&M University Health Science Center |
| Department: | Department of Epidemiology and Biostatistics |
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2005-02-15
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Fluctuation analysis is a time-honored technique for estimating mutation rates. SALVADOR 2.0, a package written in a blend of the Mathematica and the C language, provides the user with a convenient tool kit for exploring on the computer various aspects of fluctuation analysis. Specifically, the package offers functions that allow the user to simulate fluctuation experiments, to compute the probability mass functions of commonly used mutant distributions, and to estimate mutation rates using real or simulated data. In addition to the maximum likelihood method, several other existing methods for estimating mutation rates are also included in SALVADOR 2.0. Among new features of SALVADOR 2.0 are profile likelihood based confidence intervals for mutation rates, and a direct implementation of the Newton-Raphson algorithm that enhanced the package's performance.
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fluctuation experiment, mutation rate, profile likelihood based confidence interval, Newton-Raphson algorithm, Fisher information
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| salvadorreadme.txt (3.1 KB) - Text file | | Salvadore2.zip (121 KB) - Zip of all files | | manualV2.nb (226.4 KB) - Mathematica Notebook | | salvadorV2.exe (160 KB) - Windows executable file | | salvadorV2.m (30.3 KB) - Mathematica Package | | salvadorV2.tm (10.9 KB) - Unknown MIME type |
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