TileAnalysisCheck {TileShuffle}R Documentation

TileAnalysisCheck

Description

Checks parameter for exported function TileAnalysis.

Usage

TileAnalysisCheck(data, noofperms, winsize, qvalue, gcmode, gcnum,
    score.function, randomize, diff, diff.variant, regions.filename,
    zscore, verbose)

Arguments

data A data.frame with non-zero rows and the columns fullname (factor or character), name (factor or character), centerpos (integer), probelength (integer), intensity (numeric), and gc (numeric) with only non-NA values. Moreover, the gc must have values in the range [0,1].
noofperms An integer value greater than zero.
winsize An integer value greater than zero.
qvalue A numeric value between zero and one (both boundaries included).
gcmode A character value from the set of valid values ("fixed", "automatic").
gcnum An integer value. If gcmode is set to "fixed" only values from the set (1, 2, 3, or 4) are valid.
score.function A character value from the set of valid values ("mean", "trimmed", or "median").
randomize A logical value.
diff A logical value.
diff.variant A character value from the set of valid values ("A" or "B"). Only required if diff is enabled.
regions.filename Filename as a character to existing file or set to NULL.
zscore A logical value.
verbose A logical value.

Details

Checks parameter for exported function TileAnalysis whether they are missing, have a incorrect data type, or are obviously not correct, e.g., filename parameter refers to non-existing file.

Value

None but the given paramters into their correct data type if necessary and possible.


[Package TileShuffle version 0.1.0 Index]