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An odds ratio (OR) is a statistic that quantifies the strength of the association between two events, A and B. The odds ratio is defined as the ratio of the odds of event A taking place in the presence of B, and the odds of A in the absence of B. Due to symmetry, odds ratio reciprocally calculates the ratio of the odds of B occurring in the presence of A, and the odds of B in the absence of A.
The name Log5 is due to Bill James [1] but the method of using odds ratios in this way dates back much farther. This is in effect a logistic rating model and is therefore equivalent to the Bradley–Terry model used for paired comparisons , the Elo rating system used in chess and the Rasch model used in the analysis of categorical data.
For a continuous independent variable the odds ratio can be defined as: The image represents an outline of what an odds ratio looks like in writing, through a template in addition to the test score example in the "Example" section of the contents. In simple terms, if we hypothetically get an odds ratio of 2 to 1, we can say...
The use of log probabilities improves numerical stability, when the probabilities are very small, because of the way in which computers approximate real numbers. [1] Simplicity. Many probability distributions have an exponential form. Taking the log of these distributions eliminates the exponential function, unwrapping the exponent.
The log diagnostic odds ratio can also be used to study the trade-off between sensitivity and specificity [5] [6] by expressing the log diagnostic odds ratio in terms of the logit of the true positive rate (sensitivity) and false positive rate (1 − specificity), and by additionally constructing a measure, :
If p is a probability, then p/(1 − p) is the corresponding odds; the logit of the probability is the logarithm of the odds, i.e.: = = = = (). The base of the logarithm function used is of little importance in the present article, as long as it is greater than 1, but the natural logarithm with base e is the one most often used.
The log-normal distribution has also been associated with other names, such as McAlister, Gibrat and Cobb–Douglas. [4] A log-normal process is the statistical realization of the multiplicative product of many independent random variables, each of which is positive.
Each value in the matrix is calculated by dividing the frequency of occurrence of the amino acid pair in the BLOCKS database, clustered at the 62% level, divided by the probability that the same two amino acids might align by chance. The ratio is then converted to a logarithm and expressed as a log odds score, as for PAM.