Troubleshooting
Q1: Version 2.0 statTarget, the HR images are not there
In the version 2.0 or bioconductor(3.8) , the statTargetGUI function do not output the HR image or lolot for each features for saving the time.
Alternatively, you can use the shiftCor function to get the HR image.
The test code is here. You can try. (Key parameters: plot=TRUE)
datpath <- system.file('extdata',package = 'statTarget')
samPeno <- paste(datpath,'MTBLS79_sampleList.csv', sep='/')
samFile <- paste(datpath,'MTBLS79.csv', sep='/')
shiftCor(samPeno,samFile, Frule = 0.8, MLmethod = 'QCRFSC', QCspan = 0,imputeM = ‘KNN’,plot=TRUE)
Q2: Error: in imsamFP[, 2:ncol(imsamFP)]: subscript out of bounds
In the statTarget version 1.4.X, the 1st column name of Profile Files is prefixed and should be labelled as "name".
Q3: Error: in knnimp.internal(...), NA/NaN/Inf in the foreign function call (arg 1)
Only unique value or character could be typed into the 1st column of Profile Files and labelled as the metabolites ID.
Unwanted signal variations in MS-based experiments adversely affect the accuracies of molecule profiling. These unwanted signal variations were caused by batch effects, signal attenuation, and so on. The QC samples at multiple analytical experiments provides the ability to perform QC-based signal correction in order to reduce analytical variation and improve the analytical precision.
What is RGTK2?
RGTK2 is a binding for R to the GTK2 library and dependent libraries, and a multi-platform package for creating graphical user interfaces. if you have any problems about RGTK2 installation, see the related installation information for R with GTK on Windows/Mac OS at https://gist.github.com/sebkopf/9405675