Zscore {genArise} | R Documentation

## Z-scores for identifying differential expression

### Description

This function identify differential expressed genes by calculating an intensity-dependent Z-score. This function use a sliding window to calculate the mean and standard deviation within a window surrounding each data point, and define a Z-score where Z measures the number of standard deviations a data point is from the mean.

### Usage

    Zscore(spot.object,type,window.size)

### Arguments

`spot.object` | A spot object
`type` | Type of analysis: "ri" is for a R-I analysis and "ma" is for M-A analysis
`window.size` | Size of the sliding window

### Value

A dataSet object with attributes Cy3, Cy5, Id, Z-score.

### Examples

    data(Simon)
    # Background Correction
    c.spot <- bg.correct(Simon)
    #Normalized data
    n.spot <- grid.norm(c.spot,23,24)
    #Filter spot
    f.spot <- filter.spot(n.spot)
    #Replicate filtering
    u.spot <- spotUnique(f.spot)
    #Zscore analysis
    s.spot <- Zscore(u.spot)

[Package genArise version 1.0.0 Index]