Single-Cell Correlation Based Cell Type Annotation

Documentation for package ‘sccca’ version 0.1.0

calculate_cor_mat	Performs aggregation based on cell clusters and condition. Then, it calculates correlation matrix of genes
calculate_normalized_ratio	Calculate cell scores based on number of genes
enrich_genes	Performs parallel function on two lists
filter_correlation	Filter the genes based on specific correlation threshold
filter_list	Process the cell markers that overlap between the cell markers and scRNA matrix
fisher_test	Performs fisher exact test to get the significant overlap between genes for cell type assignment
match_characters	Process the cell markers that pass specific threshold in the gene correlation matrix
phyper_test	Performs phyper test to get the significant overlap between genes for cell type assignment
process_clus	Gets the associated cell types using correlation-based approach
process_markers	Process the cell markers database and return the processed list
sccca	Run the pipeline for the cell type assignment