getScore {SIMAT} | R Documentation

## Calculate similarity score for a peak

### Description

This function calculates and output the similarity score for a peak while a reference spectrum is provided. The score is based on spectral matching and RI difference between the true peak and the reference.

### Usage

    getScore(trueSpec = numeric(), refSpec = numeric(),
                            trueRI = 0, refRI = 0, deltaRI = 30)

### Arguments

`trueSpec` | a numeric vector of intensity values for the measure, i.e. true, spectrum.
`refSpec` | a numeric vector of the intensity values for the reference spectrum.
`trueRI` | a numeric value of the measured, i.e. true, retention index
`refRI` | a numeric value of the reference retention index
`deltaRI` | a numeric value for the penalty on the retention index similarity score

### Details

By calling getScore(), this function calculates the similarity score for multiple peaks in multiple runs. This is performed by using spectral and retention index information together.

### Value

numeric

### Author(s)

Mo R. Nezami Ranjbar

### References

http://omics.georgetown.edu/SIMAT.html

### See Also

`getPeakScore`

### Examples

        getScore(trueSpec = c(97, 995, 278, 343), refSpec = c(100, 1000, 250, 390))

[Package SIMAT version 1.12.1 Index]