rawScore: Calculates the rawScore values

In harrisgm/GCSscore: GCSscore: an R package for microarray analysis for Affymetrix/Thermo Fisher arrays

Calculates the rawScore values

Description

Calculates rawScore values based on differences between the two background corrected arrays in a given GCS-score analysis (e.g. CEL_1 vs. CEL_2), using the internally generated Statistical Difference Threshold (SDT) values.

Usage

rawScore(diff1, diff2, SDT1, SDT2)

Arguments

diff1	The gc-background-corrected values for the probe intensities on the 1st array
diff2	The gc-background-corrected values for the probe intensities on the 2nd array
SDT1	The internally calculated Statistical Difference Threshold (SDT=4*rawQ*SF) for the 1st array
SDT2	The internally calculated Statistical Difference Threshold (SDT=4*rawQ*SF) for the 2nd array

Value

rawScore returns a numeric vector containing the raw, ungrouped scores for every probe grouping included in the analysis (as determined by method)

Examples

if (length(list.files(path = ".", pattern = "*.CEL")) != 0){

#Example of input, as the function would be called internally:
rawScore(diff1, diff2, SDT1, SDT2)
}

harrisgm/GCSscore documentation built on Jan. 1, 2023, 12:04 a.m.