[Enhancement suggestion]: Generalise overlapping cell type classification

[ejh243]

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@ejh243

Enhancement suggestion

For the section in clusterCellTypes.r that handles overlap of NeuN+ and SATB2+ predictions, generalise to handle other types of user specified overlapping cell types.

For neuronal cell type checks, make conditional on dataset having Neuronal samples -

BrainFANS/array/DNAm/preprocessing/clusterCellTypes.r

Lines 251 to 261 in 90277ef

	# As two different antibodies used for neuronal cells used, accept if either predicted as the other
	neunIndex<-which(QCmetrics$Cell_Type %in% neunCT)
	closestLabelledCellType[neunIndex[closestCellTypePCA[neunIndex] %in% neunCT]]<-TRUE
	# SATB2- are a composition of non neuronal cells; accept so long as predicted as non-neuronal
	satb2NegIndex<-which(QCmetrics$Cell_Type == "SATB2-")
	closestLabelledCellType[satb2NegIndex[!closestCellTypePCA[satb2NegIndex] %in% neunCT]]<-TRUE
	QCmetrics<-cbind(QCmetrics, closestCellTypePCA, closestLabelledCellType)
	write.csv(QCmetrics[which(closestLabelledCellType == "FALSE"),], paste0(qcOutFolder, "/SamplesPredictedDiffCellTypePCAMahDist.csv"))