Index _ | A | B | C | D | F | G | H | I | J | M | P | R | S | T | V | W | Z _ __init__() (oxbow.arrow.BatchReaderDataset method) (oxbow.arrow.BatchReaderFragment method) (oxbow.core.BamFile method) (oxbow.core.BcfFile method) (oxbow.core.BedFile method) (oxbow.core.BigBedFile method) (oxbow.core.BigWigFile method) (oxbow.core.CramFile method) (oxbow.core.FastaFile method) (oxbow.core.FastqFile method) (oxbow.core.GffFile method) (oxbow.core.GtfFile method) (oxbow.core.PyBamScanner method) (oxbow.core.PyBBIZoomScanner method) (oxbow.core.PyBcfScanner method) (oxbow.core.PyBedScanner method) (oxbow.core.PyBigBedScanner method) (oxbow.core.PyBigWigScanner method) (oxbow.core.PyCramScanner method) (oxbow.core.PyFastaScanner method) (oxbow.core.PyFastqScanner method) (oxbow.core.PyGffScanner method) (oxbow.core.PyGtfScanner method) (oxbow.core.PySamScanner method) (oxbow.core.PyVcfScanner method) (oxbow.core.SamFile method) (oxbow.core.VcfFile method) A attribute_defs (oxbow.core.GffFile property) (oxbow.core.GtfFile property) attribute_defs() (oxbow.core.PyGffScanner method) (oxbow.core.PyGtfScanner method) B BamFile (class in oxbow.core) batches() (oxbow.core.BamFile method) (oxbow.core.BcfFile method) (oxbow.core.BedFile method) (oxbow.core.BigBedFile method) (oxbow.core.BigWigFile method) (oxbow.core.CramFile method) (oxbow.core.FastaFile method) (oxbow.core.FastqFile method) (oxbow.core.GffFile method) (oxbow.core.GtfFile method) (oxbow.core.SamFile method) (oxbow.core.VcfFile method) BatchReaderDataset (class in oxbow.arrow) BatchReaderFragment (class in oxbow.arrow) BcfFile (class in oxbow.core) BedFile (class in oxbow.core) BigBedFile (class in oxbow.core) BigWigFile (class in oxbow.core) C chrom_names (oxbow.core.BamFile property) (oxbow.core.BcfFile property) (oxbow.core.BigBedFile property) (oxbow.core.BigWigFile property) (oxbow.core.CramFile property) (oxbow.core.SamFile property) (oxbow.core.VcfFile property) chrom_names() (oxbow.core.PyBamScanner method) (oxbow.core.PyBcfScanner method) (oxbow.core.PyBigBedScanner method) (oxbow.core.PyBigWigScanner method) (oxbow.core.PyCramScanner method) (oxbow.core.PySamScanner method) (oxbow.core.PyVcfScanner method) chrom_sizes (oxbow.core.BamFile property) (oxbow.core.BcfFile property) (oxbow.core.BigBedFile property) (oxbow.core.BigWigFile property) (oxbow.core.CramFile property) (oxbow.core.SamFile property) (oxbow.core.VcfFile property) chrom_sizes() (oxbow.core.PyBamScanner method) (oxbow.core.PyBcfScanner method) (oxbow.core.PyBigBedScanner method) (oxbow.core.PyBigWigScanner method) (oxbow.core.PyCramScanner method) (oxbow.core.PySamScanner method) (oxbow.core.PyVcfScanner method) columns (oxbow.core.BamFile property) (oxbow.core.BcfFile property) (oxbow.core.BedFile property) (oxbow.core.BigBedFile property) (oxbow.core.BigWigFile property) (oxbow.core.CramFile property) (oxbow.core.FastaFile property) (oxbow.core.FastqFile property) (oxbow.core.GffFile property) (oxbow.core.GtfFile property) (oxbow.core.SamFile property) (oxbow.core.VcfFile property) count_rows() (oxbow.arrow.BatchReaderDataset method) CramFile (class in oxbow.core) D dataset() (oxbow.core.BamFile method) (oxbow.core.BcfFile method) (oxbow.core.BedFile method) (oxbow.core.BigBedFile method) (oxbow.core.BigWigFile method) (oxbow.core.CramFile method) (oxbow.core.FastaFile method) (oxbow.core.FastqFile method) (oxbow.core.GffFile method) (oxbow.core.GtfFile method) (oxbow.core.SamFile method) (oxbow.core.VcfFile method) dd() (oxbow.core.BamFile method) (oxbow.core.BcfFile method) (oxbow.core.BedFile method) (oxbow.core.BigBedFile method) (oxbow.core.BigWigFile method) (oxbow.core.CramFile method) (oxbow.core.FastaFile method) (oxbow.core.FastqFile method) (oxbow.core.GffFile method) (oxbow.core.GtfFile method) (oxbow.core.SamFile method) (oxbow.core.VcfFile method) F FastaFile (class in oxbow.core) FastqFile (class in oxbow.core) field_names() (oxbow.core.PyBamScanner method) (oxbow.core.PyBBIZoomScanner method) (oxbow.core.PyBcfScanner method) (oxbow.core.PyBedScanner method) (oxbow.core.PyBigBedScanner method) (oxbow.core.PyBigWigScanner method) (oxbow.core.PyCramScanner method) (oxbow.core.PyFastaScanner method) (oxbow.core.PyFastqScanner method) (oxbow.core.PyGffScanner method) (oxbow.core.PyGtfScanner method) (oxbow.core.PySamScanner method) (oxbow.core.PyVcfScanner method) filter() (oxbow.arrow.BatchReaderDataset method) fragments() (oxbow.core.BamFile method) (oxbow.core.BcfFile method) (oxbow.core.BedFile method) (oxbow.core.BigBedFile method) (oxbow.core.BigWigFile method) (oxbow.core.CramFile method) (oxbow.core.FastaFile method) (oxbow.core.FastqFile method) (oxbow.core.GffFile method) (oxbow.core.GtfFile method) (oxbow.core.SamFile method) (oxbow.core.VcfFile method) from_bam() (in module oxbow) from_bcf() (in module oxbow) from_bed() (in module oxbow) from_bigbed() (in module oxbow) from_bigwig() (in module oxbow) from_cram() (in module oxbow) from_fasta() (in module oxbow) from_fastq() (in module oxbow) from_gff() (in module oxbow) from_gtf() (in module oxbow) from_sam() (in module oxbow) from_vcf() (in module oxbow) G genotype_field_defs (oxbow.core.BcfFile property) (oxbow.core.VcfFile property) genotype_field_defs() (oxbow.core.PyBcfScanner method) (oxbow.core.PyVcfScanner method) genotype_field_names() (oxbow.core.PyBcfScanner method) (oxbow.core.PyVcfScanner method) get_fragments() (oxbow.arrow.BatchReaderDataset method) get_zoom() (oxbow.core.PyBigBedScanner method) (oxbow.core.PyBigWigScanner method) GffFile (class in oxbow.core) GtfFile (class in oxbow.core) H head() (oxbow.arrow.BatchReaderDataset method) I info_field_defs (oxbow.core.BcfFile property) (oxbow.core.VcfFile property) info_field_defs() (oxbow.core.PyBcfScanner method) (oxbow.core.PyVcfScanner method) info_field_names() (oxbow.core.PyBcfScanner method) (oxbow.core.PyVcfScanner method) iter_batches() (oxbow.arrow.BatchReaderDataset method) (oxbow.arrow.BatchReaderFragment method) J join() (oxbow.arrow.BatchReaderDataset method) join_asof() (oxbow.arrow.BatchReaderDataset method) M model() (oxbow.core.PyBamScanner method) (oxbow.core.PyCramScanner method) (oxbow.core.PySamScanner method) P partition_expression (oxbow.arrow.BatchReaderDataset attribute) (oxbow.arrow.BatchReaderDataset property) (oxbow.arrow.BatchReaderFragment attribute) (oxbow.arrow.BatchReaderFragment property) pd() (oxbow.core.BamFile method) (oxbow.core.BcfFile method) (oxbow.core.BedFile method) (oxbow.core.BigBedFile method) (oxbow.core.BigWigFile method) (oxbow.core.CramFile method) (oxbow.core.FastaFile method) (oxbow.core.FastqFile method) (oxbow.core.GffFile method) (oxbow.core.GtfFile method) (oxbow.core.SamFile method) (oxbow.core.VcfFile method) pl() (oxbow.core.BamFile method) (oxbow.core.BcfFile method) (oxbow.core.BedFile method) (oxbow.core.BigBedFile method) (oxbow.core.BigWigFile method) (oxbow.core.CramFile method) (oxbow.core.FastaFile method) (oxbow.core.FastqFile method) (oxbow.core.GffFile method) (oxbow.core.GtfFile method) (oxbow.core.SamFile method) (oxbow.core.VcfFile method) PyBamScanner (class in oxbow.core) PyBBIZoomScanner (class in oxbow.core) PyBcfScanner (class in oxbow.core) PyBedScanner (class in oxbow.core) PyBigBedScanner (class in oxbow.core) PyBigWigScanner (class in oxbow.core) PyCramScanner (class in oxbow.core) PyFastaScanner (class in oxbow.core) PyFastqScanner (class in oxbow.core) PyGffScanner (class in oxbow.core) PyGtfScanner (class in oxbow.core) PySamScanner (class in oxbow.core) PyVcfScanner (class in oxbow.core) R read_autosql() (oxbow.core.PyBigBedScanner method) read_bam() (in module oxbow) read_bcf() (in module oxbow) read_bed() (in module oxbow) read_bigbed() (in module oxbow) read_bigwig() (in module oxbow) read_cram() (in module oxbow) read_fasta() (in module oxbow) read_fastq() (in module oxbow) read_gff() (in module oxbow) read_gtf() (in module oxbow) read_sam() (in module oxbow) read_vcf() (in module oxbow) regions() (oxbow.core.BamFile method) (oxbow.core.BcfFile method) (oxbow.core.BedFile method) (oxbow.core.BigBedFile method) (oxbow.core.BigWigFile method) (oxbow.core.CramFile method) (oxbow.core.FastaFile method) (oxbow.core.FastqFile method) (oxbow.core.GffFile method) (oxbow.core.GtfFile method) (oxbow.core.SamFile method) (oxbow.core.VcfFile method) replace_schema() (oxbow.arrow.BatchReaderDataset method) S SamFile (class in oxbow.core) sample_names() (oxbow.core.PyBcfScanner method) (oxbow.core.PyVcfScanner method) samples (oxbow.core.BcfFile property) (oxbow.core.VcfFile property) scan() (oxbow.core.PyBamScanner method) (oxbow.core.PyBBIZoomScanner method) (oxbow.core.PyBcfScanner method) (oxbow.core.PyBedScanner method) (oxbow.core.PyBigBedScanner method) (oxbow.core.PyBigWigScanner method) (oxbow.core.PyCramScanner method) (oxbow.core.PyFastaScanner method) (oxbow.core.PyFastqScanner method) (oxbow.core.PyGffScanner method) (oxbow.core.PyGtfScanner method) (oxbow.core.PySamScanner method) (oxbow.core.PyVcfScanner method) scan_byte_ranges() (oxbow.core.PyBamScanner method) (oxbow.core.PyBcfScanner method) (oxbow.core.PyBedScanner method) (oxbow.core.PyFastqScanner method) (oxbow.core.PyGffScanner method) (oxbow.core.PyGtfScanner method) (oxbow.core.PySamScanner method) (oxbow.core.PyVcfScanner method) scan_query() (oxbow.core.PyBamScanner method) (oxbow.core.PyBBIZoomScanner method) (oxbow.core.PyBcfScanner method) (oxbow.core.PyBedScanner method) (oxbow.core.PyBigBedScanner method) (oxbow.core.PyBigWigScanner method) (oxbow.core.PyCramScanner method) (oxbow.core.PyFastaScanner method) (oxbow.core.PyGffScanner method) (oxbow.core.PyGtfScanner method) (oxbow.core.PySamScanner method) (oxbow.core.PyVcfScanner method) scan_unmapped() (oxbow.core.PyBamScanner method) (oxbow.core.PySamScanner method) scan_virtual_ranges() (oxbow.core.PyBamScanner method) (oxbow.core.PyBcfScanner method) (oxbow.core.PyBedScanner method) (oxbow.core.PyFastqScanner method) (oxbow.core.PyGffScanner method) (oxbow.core.PyGtfScanner method) (oxbow.core.PySamScanner method) (oxbow.core.PyVcfScanner method) scanner() (oxbow.arrow.BatchReaderDataset method) (oxbow.arrow.BatchReaderFragment method) (oxbow.core.BamFile method) (oxbow.core.BcfFile method) (oxbow.core.BedFile method) (oxbow.core.BigBedFile method) (oxbow.core.BigWigFile method) (oxbow.core.CramFile method) (oxbow.core.FastaFile method) (oxbow.core.FastqFile method) (oxbow.core.GffFile method) (oxbow.core.GtfFile method) (oxbow.core.SamFile method) (oxbow.core.VcfFile method) schema (oxbow.arrow.BatchReaderDataset attribute) (oxbow.arrow.BatchReaderDataset property) (oxbow.arrow.BatchReaderFragment attribute) (oxbow.arrow.BatchReaderFragment property) (oxbow.core.BamFile property) (oxbow.core.BcfFile property) (oxbow.core.BedFile property) (oxbow.core.BigBedFile property) (oxbow.core.BigWigFile property) (oxbow.core.CramFile property) (oxbow.core.FastaFile property) (oxbow.core.FastqFile property) (oxbow.core.GffFile property) (oxbow.core.GtfFile property) (oxbow.core.SamFile property) (oxbow.core.VcfFile property) schema() (oxbow.core.PyBamScanner method) (oxbow.core.PyBBIZoomScanner method) (oxbow.core.PyBcfScanner method) (oxbow.core.PyBedScanner method) (oxbow.core.PyBigBedScanner method) (oxbow.core.PyBigWigScanner method) (oxbow.core.PyCramScanner method) (oxbow.core.PyFastaScanner method) (oxbow.core.PyFastqScanner method) (oxbow.core.PyGffScanner method) (oxbow.core.PyGtfScanner method) (oxbow.core.PySamScanner method) (oxbow.core.PyVcfScanner method) sort_by() (oxbow.arrow.BatchReaderDataset method) T tag_defs (oxbow.core.BamFile property) (oxbow.core.CramFile property) (oxbow.core.SamFile property) tag_defs() (oxbow.core.PyBamScanner method) (oxbow.core.PyCramScanner method) (oxbow.core.PySamScanner method) take() (oxbow.arrow.BatchReaderDataset method) to_batches() (oxbow.arrow.BatchReaderDataset method) (oxbow.arrow.BatchReaderFragment method) to_dask() (oxbow.core.BamFile method) (oxbow.core.BcfFile method) (oxbow.core.BedFile method) (oxbow.core.BigBedFile method) (oxbow.core.BigWigFile method) (oxbow.core.CramFile method) (oxbow.core.FastaFile method) (oxbow.core.FastqFile method) (oxbow.core.GffFile method) (oxbow.core.GtfFile method) (oxbow.core.SamFile method) (oxbow.core.VcfFile method) to_duckdb() (oxbow.core.BamFile method) (oxbow.core.BcfFile method) (oxbow.core.BedFile method) (oxbow.core.BigBedFile method) (oxbow.core.BigWigFile method) (oxbow.core.CramFile method) (oxbow.core.FastaFile method) (oxbow.core.FastqFile method) (oxbow.core.GffFile method) (oxbow.core.GtfFile method) (oxbow.core.SamFile method) (oxbow.core.VcfFile method) to_ipc() (oxbow.core.BamFile method) (oxbow.core.BcfFile method) (oxbow.core.BedFile method) (oxbow.core.BigBedFile method) (oxbow.core.BigWigFile method) (oxbow.core.CramFile method) (oxbow.core.FastaFile method) (oxbow.core.FastqFile method) (oxbow.core.GffFile method) (oxbow.core.GtfFile method) (oxbow.core.SamFile method) (oxbow.core.VcfFile method) to_pandas() (oxbow.core.BamFile method) (oxbow.core.BcfFile method) (oxbow.core.BedFile method) (oxbow.core.BigBedFile method) (oxbow.core.BigWigFile method) (oxbow.core.CramFile method) (oxbow.core.FastaFile method) (oxbow.core.FastqFile method) (oxbow.core.GffFile method) (oxbow.core.GtfFile method) (oxbow.core.SamFile method) (oxbow.core.VcfFile method) to_polars() (oxbow.core.BamFile method) (oxbow.core.BcfFile method) (oxbow.core.BedFile method) (oxbow.core.BigBedFile method) (oxbow.core.BigWigFile method) (oxbow.core.CramFile method) (oxbow.core.FastaFile method) (oxbow.core.FastqFile method) (oxbow.core.GffFile method) (oxbow.core.GtfFile method) (oxbow.core.SamFile method) (oxbow.core.VcfFile method) to_table() (oxbow.arrow.BatchReaderDataset method) V VcfFile (class in oxbow.core) W with_attributes() (oxbow.core.GffFile method) (oxbow.core.GtfFile method) with_samples() (oxbow.core.BcfFile method) (oxbow.core.VcfFile method) with_tags() (oxbow.core.BamFile method) (oxbow.core.CramFile method) (oxbow.core.SamFile method) Z zoom() (oxbow.core.BigBedFile method) (oxbow.core.BigWigFile method) zoom_levels (oxbow.core.BigBedFile property) (oxbow.core.BigWigFile property) zoom_levels() (oxbow.core.PyBigBedScanner method) (oxbow.core.PyBigWigScanner method)
