Function reference • standR

All functions
`addPerROIQC()`	Add QC statistics to the Spatial Experiment object
`computeClusterEvalStats()`	Calculate statistics for evaluating batch correction
`drawPCA()`	Compute and plot the results of a PCA analysis on gene expression data
`findBestK()`	Testing multiple K for RUV4 batch correction to find the best K.
`findNCGs()`	Get negative control genes from each batch of the data
`geomxBatchCorrection()`	Batch correction for GeoMX data
`geomxNorm()`	Perform normalization to GeoMX data
`plotClusterEvalStats()`	Compare and evaluate different batch corrected data with plotting.
`plotDR()`	Compute and plot the results of any dimension reduction methods on gene expression data
`plotGeneQC()`	Plot gene-wise QC plot
`plotMDS()`	Compute and plot the results of a MDS analysis on gene expression data
`plotPCAbiplot()`	Plot PCA bi plot
`plotPairPCA()`	Plot pair-wise PCA plots for multiple dimensions
`plotRLExpr()`	Compute and plot relative log expression (RLE) values of gene expression data
`plotROIQC()`	Plot Sample-wise QC plot
`plotSampleInfo()`	Plot the user-defined meta data using alluvium plot
`plotScreePCA()`	Plot the PCA scree plot.
`readGeoMx()`	Import GeoMX DSP data into a saptial experiment object from file paths
`readGeoMxFromDGE()`	Import GeoMX DSP data into a spatial experiment object from DGEList object

Reference