msc.biomarkers.fill {Metabonomic} | R Documentation |
Fill empty spaces (NA's) in biomarker matrix created by msc.peaks.align. Transcription of msc.biomarkers.fill function of caMassClass
msc.biomarkers.fill(X, Bmrks, BinBounds, FillType = 0.9)
X |
Spectrum data either in matrix format [nFeatures x nSamples] or in 3D array format [nFeatures x nSamples x nCopies]. Row names (rownames(X)) store M/Z mass of each row. |
Bmrks |
biomarker matrix containing one sample per column and one biomarker per row |
BinBounds |
position (mass) of left-most and right-most peak in each bin |
FillType |
how to fill empty spaces in biomarker data?
* if 0<=FillType<=1 than fill spaces with quantile(probs=FillType). For example: if FillType=1/2 than medium will be used, if FillType=1 than maximum value will be used, if FillType=0.9 than maximum will be used after discarding 10 * if FillType<0 than empty spaces will not be filled and NA's will remain * if FillType==2 than X value closest to the center of the bin will be used * if FillType==3 empty spaces will be set to zero |
Transcription of masc.biomarkers.fill function of caMassClass
Data in the same format and size as Bmrks
Jarek Tuszynski (SAIC) jaroslaw.w.tuszynski@saic.com
caMassClass http://finzi.psych.upenn.edu/R/library/caMassClass/html/00Index.html