R: Single-Cell Correlation Based Cell Type Annotation

# Single-Cell Correlation Based Cell Type Annotation

## Documentation for package ‘sccca’ version 0.1.1

- DESCRIPTION file

## Help Pages

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
correct_gene_symbols | Process the cell markers names
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_database | Process the database for the sctype approach
process_markers | Process the cell markers database and return the processed list
sccca | Run the pipeline for the cell type assignment
sctype | Run the sctype approach as it's implemented by Ianevski, A., Giri, A.K. and Aittokallio, T.