AddAdjList              Add adjacency matrix list for a PRECASTObj
                        object
AddParSetting           Add model settings for a PRECASTObj object
AddTSNE                 Add tSNE embeddings for a Seurat object
AddUMAP                 Add UMAP embeddings for a Seurat object
Add_embed               Add embeddings for a Seurat object
CreatePRECASTObject     Create the PRECAST object with preprocessing
                        step.
Human_HK_genes          Human housekeeping genes database
ICM.EM                  ICM-EM algorithm implementation
ICM.EM_structure        ICM-EM algorithm implementation with organized
                        paramters
IntegrateSpaData        Integrate multiple SRT data
Mouse_HK_genes          Mouse housekeeping genes database
PRECAST                 Fit a PRECAST model
PRECASTObj              A simple PRECASTObj for example
PRECASTObj-class        Each PRECASTObj object has a number of slots
                        which store information.
SelectModel             Select best PRECAST model from candidated
                        models
SpaPlot                 Spatial heatmap
boxPlot                 Boxplot for a matrix
chooseColors            Choose color schema from a palette
coordinate_rotate       Coordinates rotation for visualization
dimPlot                 Low-dimensional embeddings' plot
doHeatmap               Heatmap for spots-by-feature matrix
drawFigs                Draw a figure using a group of ggplot objects
featurePlot             Spatial expression heatmap
firstup                 Set the first letter of a string vector to
                        captial
getAdj_fixedNumber      Calculate adjacency matrix by user-specified
                        number of neighbors
getAdj_reg              Calculate adjacency matrix for regular spatial
                        coordinates.
getneighborhood_fast    getneighborhood_fast
model_set               PRECAST model setting
plot_RGB                Spatial RGB heatmap
plot_scatter            Scatter plot for two-dimensional embeddings
selectIntFeatures       Select common genes for multiple data batches
volinPlot               Volin/boxplot plot
