# 'DuckDB' High Throughput Sequencing File Formats Reader Extension

## Documentation for package ‘Rduckhts’ version 1.1.6-0.0.2

- DESCRIPTION file.
- Package NEWS.

## Help Pages

detect_complex_types | Detect Complex Types in DuckDB Table
duckdb_type_mappings | DuckDB to R Type Mappings
duckhts_bootstrap | Bootstrap the duckhts extension sources into the R package
duckhts_build | Build the duckhts DuckDB extension
duckhts_load | Load the duckhts extension into a DuckDB connection
extract_array_element | Extract Array Elements Safely
extract_map_data | Extract MAP Keys and Values
normalize_tabix_types | Normalize R Data Types to DuckDB Types for Tabix
rduckhts_bam | Create SAM/BAM/CRAM Table
rduckhts_bam_index | Build BAM or CRAM Index
rduckhts_bcf | Create VCF/BCF Table
rduckhts_bcf_index | Build VCF or BCF Index
rduckhts_bed | Create BED Table
rduckhts_bgunzip | BGZF Decompress a File
rduckhts_bgzip | BGZF Compress a File
rduckhts_detect_quality_encoding | Detect FASTQ Quality Encoding
rduckhts_fasta | Create FASTA Table
rduckhts_fasta_index | Build FASTA Index
rduckhts_fasta_nuc | Compute FASTA Interval Nucleotide Composition
rduckhts_fastq | Create FASTQ Table
rduckhts_functions | List DuckHTS Extension Functions
rduckhts_gff | Create GFF3 Table
rduckhts_gtf | Create GTF Table
rduckhts_hts_header | Read HTS Header Metadata
rduckhts_hts_index | Read HTS Index Metadata
rduckhts_hts_index_raw | Read Raw HTS Index Blob
rduckhts_hts_index_spans | Read HTS Index Spans
rduckhts_liftover | Lift Over Variant Coordinates Against a Query
rduckhts_load | Load DuckHTS Extension
rduckhts_munge | Munge Summary Statistics Rows
rduckhts_score | Compute Polygenic Scores
rduckhts_tabix | Create Tabix-Indexed File Table
rduckhts_tabix_index | Build Tabix Index
setup_hts_env | Setup HTSlib Environment