SingleCellAlleleExperiment-class
                        The SingleCellAlleleExperiment class
SingleCellAlleleExperiment-misc
                        Miscellaneous SingleCellAlleleExperiment
                        methods
alleles2genes           Building first new subassay for
                        SingleCellAllelexperiment object
check_valid_optional_package
                        Check package installation for optional
                        functionalities
ext_rd                  Extend rowData with new annotation columns
find_allele_ids         Identify rows containing allele information
genes2functional        Building second new subassay for the
                        SingleCellAlleleExperiment object
get_agenes              Get immune gene rows
get_allelecounts        Get Subassay with allele gene names and raw
                        allele quantification
get_knee_info           Knee plot info
get_ncbi_org            Get NCBI genes using the org.HS.db package
get_nigenes             Get non-immune rows
read_allele_counts      Reading in allele quantification data into
                        SingleCellAlleleExperiment object
read_from_sparse_allele
                        Reading in allele-aware quantification data
rowData<-,SingleCellAlleleExperiment,ANY-method
                        rowData setter for the
                        SingleCellAlleleExperiment class
rowData<-,SingleCellAlleleExperiment,NULL-method
                        rowData-NULL-setter for the
                        SingleCellAlleleExperiment class
scae_subset             Subset SCAE object
scae_subset_alleles     Get allele rows
scae_subset_functional
                        Get functional class rows
