List of all items

Structs

• eq_class::CellEqClass
• eq_class::EqMap
• eq_class::EqMapEntry
• eq_class::IndexedEqList
• prog_opts::GenPermitListOpts
• prog_opts::QuantOpts
• pugutils::PugResolutionStatistics
• utils::InternalVersionInfo

Enums

• cellfilter::CellFilterMethod
• em::EmInitType
• eq_class::EqMapType
• pugutils::PugEdgeType
• quant::ResolutionStrategy
• quant::SplicedAmbiguityModel
• utils::VersionParseError

Functions

• cellfilter::generate_permit_list
• cellfilter::permit_list_from_file
• cellfilter::permit_list_from_threshold
• cellfilter::update_barcode_hist
• cellfilter::update_barcode_hist_unfiltered
• cmd_parse_utils::pathbuf_directory_exists_validator
• cmd_parse_utils::pathbuf_file_exists_validator
• collate::collate
• collate::collate_with_temp
• convert::bam2rad
• convert::cb_string_to_u64
• convert::view
• convert::view2
• em::em_optimize
• em::em_optimize_subset
• em::em_update
• em::run_bootstrap
• em::run_bootstrap_old
• infer::infer
• pugutils::extract_graph
• pugutils::get_num_molecules
• pugutils::get_num_molecules_cell_ranger_like
• pugutils::get_num_molecules_cell_ranger_like_small
• pugutils::get_num_molecules_trivial_discard_all_ambig
• pugutils::weakly_connected_components
• quant::do_quantify
• quant::quantify
• quant::velo_quantify
• utils::extract_counts
• utils::extract_counts_mm_uniform
• utils::extract_usa_eqmap
• utils::generate_permitlist_map
• utils::generate_whitelist_set
• utils::get_all_indels
• utils::get_all_one_edit_neighbors
• utils::get_all_snps
• utils::get_bit_mask
• utils::is_spliced
• utils::is_unspliced
• utils::is_velo_mode
• utils::parse_tg_map
• utils::read_filter_list
• utils::same_gene
• utils::write_permit_list_freq