List of all items
Structs
- bam::ChunkIterator
- bam::HeaderView
- bam::IndexView
- bam::IndexedReader
- bam::RcRecords
- bam::Reader
- bam::Records
- bam::Writer
- bam::buffer::RecordBuffer
- bam::ext::IterAlignedBlockPairs
- bam::ext::IterAlignedBlocks
- bam::ext::IterAlignedPairs
- bam::ext::IterAlignedPairsFull
- bam::ext::IterIntrons
- bam::header::Header
- bam::header::HeaderRecord
- bam::pileup::Alignment
- bam::pileup::Pileup
- bam::pileup::Pileups
- bam::record::AuxArrayIter
- bam::record::AuxIter
- bam::record::BaseModificationMetadata
- bam::record::BaseModificationState
- bam::record::BaseModificationsIter
- bam::record::BaseModificationsPositionIter
- bam::record::CigarString
- bam::record::CigarStringView
- bam::record::Record
- bam::record::Seq
- bcf::IndexedReader
- bcf::Reader
- bcf::Records
- bcf::Writer
- bcf::buffer::RecordBuffer
- bcf::header::Header
- bcf::header::HeaderView
- bcf::header::Id
- bcf::index::BcfBuildError
- bcf::record::Buffer
- bcf::record::BufferBacked
- bcf::record::Filters
- bcf::record::Format
- bcf::record::Genotype
- bcf::record::Genotypes
- bcf::record::Info
- bcf::record::Record
- bcf::synced::SyncedReader
- bgzf::Reader
- bgzf::Writer
- faidx::Reader
- htslib::BGZF
- htslib::_G_fpos64_t
- htslib::_G_fpos_t
- htslib::_IO_FILE
- htslib::_IO_codecvt
- htslib::_IO_marker
- htslib::_IO_wide_data
- htslib::__BindgenBitfieldUnit
- htslib::__atomic_wide_counter__bindgen_ty_1
- htslib::__fsid_t
- htslib::__locale_data
- htslib::__locale_struct
- htslib::__mbstate_t
- htslib::__once_flag
- htslib::__pthread_cond_s
- htslib::__pthread_internal_list
- htslib::__pthread_internal_slist
- htslib::__pthread_mutex_s
- htslib::__pthread_mutex_s__bindgen_ty_1__bindgen_ty_1
- htslib::__pthread_rwlock_arch_t
- htslib::__sigset_t
- htslib::bam1_core_t
- htslib::bam1_t
- htslib::bam_mplp_s
- htslib::bam_pileup1_t
- htslib::bam_plp_s
- htslib::bcf1_t
- htslib::bcf_dec_t
- htslib::bcf_fmt_t
- htslib::bcf_hdr_t
- htslib::bcf_hrec_t
- htslib::bcf_idinfo_t
- htslib::bcf_idpair_t
- htslib::bcf_info_t
- htslib::bcf_sr_region_t
- htslib::bcf_sr_regions_t
- htslib::bcf_sr_t
- htslib::bcf_srs_t
- htslib::bcf_variant_t
- htslib::bgzf_cache_t
- htslib::bgzf_mtaux_t
- htslib::bgzidx_t
- htslib::cram_block
- htslib::cram_block_compression_hdr
- htslib::cram_block_slice_hdr
- htslib::cram_cid2ds_t
- htslib::cram_codec
- htslib::cram_container
- htslib::cram_fd
- htslib::cram_file_def
- htslib::cram_method_details
- htslib::cram_metrics
- htslib::cram_slice
- htslib::div_t
- htslib::drand48_data
- htslib::errmod_t
- htslib::faidx_t
- htslib::fd_set
- htslib::hFILE
- htslib::htsFile
- htslib::htsFormat
- htslib::htsFormat__bindgen_ty_1
- htslib::htsThreadPool
- htslib::hts_base_mod
- htslib::hts_base_mod_state
- htslib::hts_filter_t
- htslib::hts_idx_t
- htslib::hts_itr_t
- htslib::hts_itr_t__bindgen_ty_1
- htslib::hts_md5_context
- htslib::hts_opt
- htslib::hts_pair64_max_t
- htslib::hts_pair64_t
- htslib::hts_pair_pos_t
- htslib::hts_reglist_t
- htslib::hts_tpool
- htslib::hts_tpool_process
- htslib::hts_tpool_result
- htslib::imaxdiv_t
- htslib::kbitset_iter_t
- htslib::kbitset_t
- htslib::ks_tokaux_t
- htslib::kstring_t
- htslib::ldiv_t
- htslib::lldiv_t
- htslib::probaln_par_t
- htslib::random_data
- htslib::refs_t
- htslib::sam_hdr_t
- htslib::sam_hrecs_t
- htslib::tbx_conf_t
- htslib::tbx_t
- htslib::timespec
- htslib::timeval
- htslib::z_stream_s
- tbx::Reader
- tbx::Records
- tpool::InnerThreadPool
- tpool::ThreadPool
Enums
- bam::CompressionLevel
- bam::FetchDefinition
- bam::Format
- bam::index::Type
- bam::pileup::Indel
- bam::record::Aux
- bam::record::AuxArray
- bam::record::Cigar
- bcf::Format
- bcf::header::HeaderRecord
- bcf::header::TagLength
- bcf::header::TagType
- bcf::index::Type
- bcf::record::GenotypeAllele
- bgzf::CompressionLevel
- errors::Error
Unions
- htslib::__atomic_wide_counter
- htslib::__mbstate_t__bindgen_ty_1
- htslib::__pthread_mutex_s__bindgen_ty_1
- htslib::bam_pileup_cd
- htslib::bcf_info_t__bindgen_ty_1
- htslib::htsFile__bindgen_ty_1
- htslib::hts_opt__bindgen_ty_1
- htslib::pthread_attr_t
- htslib::pthread_barrier_t
- htslib::pthread_barrierattr_t
- htslib::pthread_cond_t
- htslib::pthread_condattr_t
- htslib::pthread_mutex_t
- htslib::pthread_mutexattr_t
- htslib::pthread_rwlock_t
- htslib::pthread_rwlockattr_t
Traits
- bam::Read
- bam::ext::BamRecordExtensions
- bam::record::AuxArrayElement
- bcf::Read
- bcf::record::FilterId
- bcf::record::Numeric
- tbx::Read
Functions
- bam::index::build
- bam::set_fai_filename
- bcf::index::build
- bcf::set_threads
- bgzf::is_bgzip
- faidx::build
- htslib::_Exit
- htslib::__assert
- htslib::__assert_fail
- htslib::__assert_perror_fail
- htslib::__ctype_get_mb_cur_max
- htslib::__errno_location
- htslib::__getdelim
- htslib::__memcmpeq
- htslib::__overflow
- htslib::__stpcpy
- htslib::__stpncpy
- htslib::__strtok_r
- htslib::__uflow
- htslib::a64l
- htslib::abort
- htslib::abs
- htslib::aligned_alloc
- htslib::alloca
- htslib::at_quick_exit
- htslib::atexit
- htslib::atof
- htslib::atoi
- htslib::atol
- htslib::atoll
- htslib::bam_aux2A
- htslib::bam_aux2Z
- htslib::bam_aux2f
- htslib::bam_aux2i
- htslib::bam_auxB2f
- htslib::bam_auxB2i
- htslib::bam_auxB_len
- htslib::bam_aux_append
- htslib::bam_aux_del
- htslib::bam_aux_first
- htslib::bam_aux_get
- htslib::bam_aux_next
- htslib::bam_aux_remove
- htslib::bam_aux_update_array
- htslib::bam_aux_update_float
- htslib::bam_aux_update_int
- htslib::bam_aux_update_str
- htslib::bam_cigar2qlen
- htslib::bam_cigar2rlen
- htslib::bam_copy1
- htslib::bam_destroy1
- htslib::bam_dup1
- htslib::bam_endpos
- htslib::bam_flag2str
- htslib::bam_hdr_read
- htslib::bam_hdr_write
- htslib::bam_init1
- htslib::bam_mods_at_next_pos
- htslib::bam_mods_at_qpos
- htslib::bam_mods_query_type
- htslib::bam_mods_queryi
- htslib::bam_mods_recorded
- htslib::bam_mplp64_auto
- htslib::bam_mplp_auto
- htslib::bam_mplp_constructor
- htslib::bam_mplp_destroy
- htslib::bam_mplp_destructor
- htslib::bam_mplp_init
- htslib::bam_mplp_init_overlaps
- htslib::bam_mplp_reset
- htslib::bam_mplp_set_maxcnt
- htslib::bam_next_basemod
- htslib::bam_parse_basemod
- htslib::bam_parse_basemod2
- htslib::bam_parse_cigar
- htslib::bam_plp64_auto
- htslib::bam_plp64_next
- htslib::bam_plp_auto
- htslib::bam_plp_constructor
- htslib::bam_plp_destroy
- htslib::bam_plp_destructor
- htslib::bam_plp_init
- htslib::bam_plp_insertion
- htslib::bam_plp_insertion_mod
- htslib::bam_plp_next
- htslib::bam_plp_push
- htslib::bam_plp_reset
- htslib::bam_plp_set_maxcnt
- htslib::bam_read1
- htslib::bam_set1
- htslib::bam_set_qname
- htslib::bam_str2flag
- htslib::bam_write1
- htslib::bcf_add_filter
- htslib::bcf_add_id
- htslib::bcf_calc_ac
- htslib::bcf_clear
- htslib::bcf_copy
- htslib::bcf_destroy
- htslib::bcf_dup
- htslib::bcf_empty
- htslib::bcf_enc_vchar
- htslib::bcf_enc_vfloat
- htslib::bcf_enc_vint
- htslib::bcf_fmt_array
- htslib::bcf_fmt_sized_array
- htslib::bcf_get_fmt
- htslib::bcf_get_fmt_id
- htslib::bcf_get_format_string
- htslib::bcf_get_format_values
- htslib::bcf_get_info
- htslib::bcf_get_info_id
- htslib::bcf_get_info_values
- htslib::bcf_get_variant_type
- htslib::bcf_get_variant_types
- htslib::bcf_gt_type
- htslib::bcf_has_filter
- htslib::bcf_has_variant_type
- htslib::bcf_has_variant_types
- htslib::bcf_hdr_add_hrec
- htslib::bcf_hdr_add_sample
- htslib::bcf_hdr_append
- htslib::bcf_hdr_combine
- htslib::bcf_hdr_destroy
- htslib::bcf_hdr_dup
- htslib::bcf_hdr_fmt_text
- htslib::bcf_hdr_format
- htslib::bcf_hdr_get_hrec
- htslib::bcf_hdr_get_version
- htslib::bcf_hdr_id2int
- htslib::bcf_hdr_init
- htslib::bcf_hdr_merge
- htslib::bcf_hdr_parse
- htslib::bcf_hdr_parse_line
- htslib::bcf_hdr_printf
- htslib::bcf_hdr_read
- htslib::bcf_hdr_remove
- htslib::bcf_hdr_seqnames
- htslib::bcf_hdr_set
- htslib::bcf_hdr_set_samples
- htslib::bcf_hdr_set_version
- htslib::bcf_hdr_subset
- htslib::bcf_hdr_sync
- htslib::bcf_hdr_write
- htslib::bcf_hrec_add_key
- htslib::bcf_hrec_destroy
- htslib::bcf_hrec_dup
- htslib::bcf_hrec_find_key
- htslib::bcf_hrec_format
- htslib::bcf_hrec_set_val
- htslib::bcf_idx_init
- htslib::bcf_idx_save
- htslib::bcf_index_build
- htslib::bcf_index_build2
- htslib::bcf_index_build3
- htslib::bcf_index_load2
- htslib::bcf_index_load3
- htslib::bcf_init
- htslib::bcf_is_snp
- htslib::bcf_read
- htslib::bcf_readrec
- htslib::bcf_remove_allele_set
- htslib::bcf_remove_alleles
- htslib::bcf_remove_filter
- htslib::bcf_sr_add_reader
- htslib::bcf_sr_destroy
- htslib::bcf_sr_destroy_threads
- htslib::bcf_sr_init
- htslib::bcf_sr_next_line
- htslib::bcf_sr_regions_destroy
- htslib::bcf_sr_regions_flush
- htslib::bcf_sr_regions_init
- htslib::bcf_sr_regions_next
- htslib::bcf_sr_regions_overlap
- htslib::bcf_sr_regions_seek
- htslib::bcf_sr_remove_reader
- htslib::bcf_sr_seek
- htslib::bcf_sr_set_opt
- htslib::bcf_sr_set_regions
- htslib::bcf_sr_set_samples
- htslib::bcf_sr_set_targets
- htslib::bcf_sr_set_threads
- htslib::bcf_sr_strerror
- htslib::bcf_strerror
- htslib::bcf_subset
- htslib::bcf_subset_format
- htslib::bcf_translate
- htslib::bcf_trim_alleles
- htslib::bcf_unpack
- htslib::bcf_update_alleles
- htslib::bcf_update_alleles_str
- htslib::bcf_update_filter
- htslib::bcf_update_format
- htslib::bcf_update_format_string
- htslib::bcf_update_id
- htslib::bcf_update_info
- htslib::bcf_variant_length
- htslib::bcf_write
- htslib::bcmp
- htslib::bcopy
- htslib::bgzf_block_write
- htslib::bgzf_check_EOF
- htslib::bgzf_close
- htslib::bgzf_compress
- htslib::bgzf_compression
- htslib::bgzf_dopen
- htslib::bgzf_flush
- htslib::bgzf_flush_try
- htslib::bgzf_getc
- htslib::bgzf_getline
- htslib::bgzf_hopen
- htslib::bgzf_index_build_init
- htslib::bgzf_index_dump
- htslib::bgzf_index_dump_hfile
- htslib::bgzf_index_load
- htslib::bgzf_index_load_hfile
- htslib::bgzf_is_bgzf
- htslib::bgzf_mt
- htslib::bgzf_open
- htslib::bgzf_peek
- htslib::bgzf_raw_read
- htslib::bgzf_raw_write
- htslib::bgzf_read
- htslib::bgzf_read_block
- htslib::bgzf_seek
- htslib::bgzf_set_cache_size
- htslib::bgzf_thread_pool
- htslib::bgzf_useek
- htslib::bgzf_utell
- htslib::bgzf_write
- htslib::bsearch
- htslib::bzero
- htslib::calloc
- htslib::clearenv
- htslib::clearerr
- htslib::clearerr_unlocked
- htslib::cram_block_append
- htslib::cram_block_get_comp_size
- htslib::cram_block_get_content_id
- htslib::cram_block_get_content_type
- htslib::cram_block_get_crc32
- htslib::cram_block_get_data
- htslib::cram_block_get_method
- htslib::cram_block_get_offset
- htslib::cram_block_get_uncomp_size
- htslib::cram_block_set_comp_size
- htslib::cram_block_set_content_id
- htslib::cram_block_set_crc32
- htslib::cram_block_set_data
- htslib::cram_block_set_offset
- htslib::cram_block_set_uncomp_size
- htslib::cram_block_size
- htslib::cram_block_update_size
- htslib::cram_check_EOF
- htslib::cram_cid2ds_free
- htslib::cram_cid2ds_query
- htslib::cram_close
- htslib::cram_codec_describe
- htslib::cram_codec_get_content_ids
- htslib::cram_compress_block
- htslib::cram_compress_block2
- htslib::cram_container_get_landmarks
- htslib::cram_container_get_length
- htslib::cram_container_get_num_bases
- htslib::cram_container_get_num_blocks
- htslib::cram_container_get_num_records
- htslib::cram_container_is_empty
- htslib::cram_container_set_landmarks
- htslib::cram_container_set_length
- htslib::cram_container_set_num_blocks
- htslib::cram_container_size
- htslib::cram_copy_slice
- htslib::cram_decode_compression_header
- htslib::cram_decode_slice_header
- htslib::cram_describe_encodings
- htslib::cram_dopen
- htslib::cram_eof
- htslib::cram_expand_method
- htslib::cram_fd_get_fp
- htslib::cram_fd_get_header
- htslib::cram_fd_get_version
- htslib::cram_fd_set_fp
- htslib::cram_fd_set_header
- htslib::cram_fd_set_version
- htslib::cram_flush
- htslib::cram_free_block
- htslib::cram_free_compression_header
- htslib::cram_free_container
- htslib::cram_free_slice_header
- htslib::cram_get_refs
- htslib::cram_major_vers
- htslib::cram_minor_vers
- htslib::cram_new_block
- htslib::cram_new_container
- htslib::cram_open
- htslib::cram_read_block
- htslib::cram_read_container
- htslib::cram_seek
- htslib::cram_set_header
- htslib::cram_set_option
- htslib::cram_set_voption
- htslib::cram_slice_hdr_get_coords
- htslib::cram_slice_hdr_get_embed_ref_id
- htslib::cram_slice_hdr_get_num_blocks
- htslib::cram_store_container
- htslib::cram_transcode_rg
- htslib::cram_uncompress_block
- htslib::cram_update_cid2ds_map
- htslib::cram_write_block
- htslib::cram_write_container
- htslib::ctermid
- htslib::div
- htslib::dprintf
- htslib::drand48
- htslib::drand48_r
- htslib::ecvt
- htslib::ecvt_r
- htslib::erand48
- htslib::erand48_r
- htslib::errmod_cal
- htslib::errmod_destroy
- htslib::errmod_init
- htslib::exit
- htslib::explicit_bzero
- htslib::fai_adjust_region
- htslib::fai_build
- htslib::fai_build3
- htslib::fai_destroy
- htslib::fai_fetch
- htslib::fai_fetch64
- htslib::fai_fetchqual
- htslib::fai_fetchqual64
- htslib::fai_line_length
- htslib::fai_load
- htslib::fai_load3
- htslib::fai_load3_format
- htslib::fai_load_format
- htslib::fai_parse_region
- htslib::fai_path
- htslib::fai_set_cache_size
- htslib::fai_thread_pool
- htslib::faidx_fetch_nseq
- htslib::faidx_fetch_qual
- htslib::faidx_fetch_qual64
- htslib::faidx_fetch_seq
- htslib::faidx_fetch_seq64
- htslib::faidx_has_seq
- htslib::faidx_iseq
- htslib::faidx_nseq
- htslib::faidx_seq_len
- htslib::faidx_seq_len64
- htslib::fclose
- htslib::fcvt
- htslib::fcvt_r
- htslib::fdopen
- htslib::feof
- htslib::feof_unlocked
- htslib::ferror
- htslib::ferror_unlocked
- htslib::fflush
- htslib::fflush_unlocked
- htslib::ffs
- htslib::ffsl
- htslib::ffsll
- htslib::fgetc
- htslib::fgetc_unlocked
- htslib::fgetpos
- htslib::fgets
- htslib::fileno
- htslib::fileno_unlocked
- htslib::flockfile
- htslib::fmemopen
- htslib::fopen
- htslib::fprintf
- htslib::fputc
- htslib::fputc_unlocked
- htslib::fputs
- htslib::fread
- htslib::fread_unlocked
- htslib::free
- htslib::freopen
- htslib::fscanf
- htslib::fscanf1
- htslib::fseek
- htslib::fseeko
- htslib::fsetpos
- htslib::ftell
- htslib::ftello
- htslib::ftrylockfile
- htslib::funlockfile
- htslib::fwrite
- htslib::fwrite_unlocked
- htslib::gcvt
- htslib::getc
- htslib::getc_unlocked
- htslib::getchar
- htslib::getchar_unlocked
- htslib::getdelim
- htslib::getenv
- htslib::getline
- htslib::getloadavg
- htslib::getsubopt
- htslib::getw
- htslib::hrec_add_idx
- htslib::hts_base_mod_state_alloc
- htslib::hts_base_mod_state_free
- htslib::hts_check_EOF
- htslib::hts_close
- htslib::hts_detect_format
- htslib::hts_detect_format2
- htslib::hts_feature_string
- htslib::hts_features
- htslib::hts_file_type
- htslib::hts_flush
- htslib::hts_format_description
- htslib::hts_format_file_extension
- htslib::hts_free
- htslib::hts_get_bgzfp
- htslib::hts_get_format
- htslib::hts_get_log_level
- htslib::hts_getline
- htslib::hts_hopen
- htslib::hts_idx_destroy
- htslib::hts_idx_finish
- htslib::hts_idx_fmt
- htslib::hts_idx_get_meta
- htslib::hts_idx_get_n_no_coor
- htslib::hts_idx_get_stat
- htslib::hts_idx_init
- htslib::hts_idx_load
- htslib::hts_idx_load2
- htslib::hts_idx_load3
- htslib::hts_idx_nseq
- htslib::hts_idx_push
- htslib::hts_idx_save
- htslib::hts_idx_save_as
- htslib::hts_idx_seqnames
- htslib::hts_idx_set_meta
- htslib::hts_idx_tbi_name
- htslib::hts_itr_destroy
- htslib::hts_itr_multi_bam
- htslib::hts_itr_multi_cram
- htslib::hts_itr_multi_next
- htslib::hts_itr_next
- htslib::hts_itr_query
- htslib::hts_itr_querys
- htslib::hts_itr_regions
- htslib::hts_lib_shutdown
- htslib::hts_log
- htslib::hts_md5_destroy
- htslib::hts_md5_final
- htslib::hts_md5_hex
- htslib::hts_md5_init
- htslib::hts_md5_reset
- htslib::hts_md5_update
- htslib::hts_open
- htslib::hts_open_format
- htslib::hts_opt_add
- htslib::hts_opt_apply
- htslib::hts_opt_free
- htslib::hts_parse_decimal
- htslib::hts_parse_format
- htslib::hts_parse_opt_list
- htslib::hts_parse_reg
- htslib::hts_parse_reg64
- htslib::hts_parse_region
- htslib::hts_readlines
- htslib::hts_readlist
- htslib::hts_reglist_create
- htslib::hts_reglist_free
- htslib::hts_resize_array_
- htslib::hts_set_cache_size
- htslib::hts_set_fai_filename
- htslib::hts_set_filter_expression
- htslib::hts_set_log_level
- htslib::hts_set_opt
- htslib::hts_set_thread_pool
- htslib::hts_set_threads
- htslib::hts_test_feature
- htslib::hts_tpool_delete_result
- htslib::hts_tpool_destroy
- htslib::hts_tpool_dispatch
- htslib::hts_tpool_dispatch2
- htslib::hts_tpool_dispatch3
- htslib::hts_tpool_init
- htslib::hts_tpool_kill
- htslib::hts_tpool_next_result
- htslib::hts_tpool_next_result_wait
- htslib::hts_tpool_process_attach
- htslib::hts_tpool_process_destroy
- htslib::hts_tpool_process_detach
- htslib::hts_tpool_process_empty
- htslib::hts_tpool_process_flush
- htslib::hts_tpool_process_init
- htslib::hts_tpool_process_is_shutdown
- htslib::hts_tpool_process_len
- htslib::hts_tpool_process_qsize
- htslib::hts_tpool_process_ref_decr
- htslib::hts_tpool_process_ref_incr
- htslib::hts_tpool_process_reset
- htslib::hts_tpool_process_shutdown
- htslib::hts_tpool_process_sz
- htslib::hts_tpool_result_data
- htslib::hts_tpool_size
- htslib::hts_tpool_wake_dispatch
- htslib::hts_version
- htslib::imaxabs
- htslib::imaxdiv
- htslib::index
- htslib::initstate
- htslib::initstate_r
- htslib::int32_put_blk
- htslib::jrand48
- htslib::jrand48_r
- htslib::kbs_destroy
- htslib::kbs_init
- htslib::kbs_init2
- htslib::kbs_insert
- htslib::kgetline
- htslib::kgetline2
- htslib::kmemmem
- htslib::kputd
- htslib::ksplit_core
- htslib::ksprintf
- htslib::kstrnstr
- htslib::kstrstr
- htslib::kstrtok
- htslib::kvsprintf
- htslib::l64a
- htslib::labs
- htslib::lcong48
- htslib::lcong48_r
- htslib::ldiv
- htslib::llabs
- htslib::lldiv
- htslib::lrand48
- htslib::lrand48_r
- htslib::malloc
- htslib::mblen
- htslib::mbstowcs
- htslib::mbtowc
- htslib::memccpy
- htslib::memchr
- htslib::memcmp
- htslib::memcpy
- htslib::memmove
- htslib::memset
- htslib::mkdtemp
- htslib::mkstemp
- htslib::mkstemps
- htslib::mktemp
- htslib::mrand48
- htslib::mrand48_r
- htslib::nrand48
- htslib::nrand48_r
- htslib::on_exit
- htslib::open_memstream
- htslib::pclose
- htslib::perror
- htslib::popen
- htslib::posix_memalign
- htslib::printf
- htslib::probaln_glocal
- htslib::pselect
- htslib::putc
- htslib::putc_unlocked
- htslib::putchar
- htslib::putchar_unlocked
- htslib::putenv
- htslib::puts
- htslib::putw
- htslib::qecvt
- htslib::qecvt_r
- htslib::qfcvt
- htslib::qfcvt_r
- htslib::qgcvt
- htslib::qsort
- htslib::quick_exit
- htslib::rand
- htslib::rand_r
- htslib::random
- htslib::random_r
- htslib::realloc
- htslib::reallocarray
- htslib::realpath
- htslib::remove
- htslib::rename
- htslib::renameat
- htslib::rewind
- htslib::rindex
- htslib::rpmatch
- htslib::sam_cap_mapq
- htslib::sam_format1
- htslib::sam_hdr_add_line
- htslib::sam_hdr_add_lines
- htslib::sam_hdr_add_pg
- htslib::sam_hdr_change_HD
- htslib::sam_hdr_count_lines
- htslib::sam_hdr_destroy
- htslib::sam_hdr_dup
- htslib::sam_hdr_find_line_id
- htslib::sam_hdr_find_line_pos
- htslib::sam_hdr_find_tag_id
- htslib::sam_hdr_find_tag_pos
- htslib::sam_hdr_incr_ref
- htslib::sam_hdr_init
- htslib::sam_hdr_length
- htslib::sam_hdr_line_index
- htslib::sam_hdr_line_name
- htslib::sam_hdr_name2tid
- htslib::sam_hdr_nref
- htslib::sam_hdr_parse
- htslib::sam_hdr_pg_id
- htslib::sam_hdr_read
- htslib::sam_hdr_remove_except
- htslib::sam_hdr_remove_line_id
- htslib::sam_hdr_remove_line_pos
- htslib::sam_hdr_remove_lines
- htslib::sam_hdr_remove_tag_id
- htslib::sam_hdr_str
- htslib::sam_hdr_tid2len
- htslib::sam_hdr_tid2name
- htslib::sam_hdr_update_line
- htslib::sam_hdr_write
- htslib::sam_idx_init
- htslib::sam_idx_save
- htslib::sam_index_build
- htslib::sam_index_build2
- htslib::sam_index_build3
- htslib::sam_index_load
- htslib::sam_index_load2
- htslib::sam_index_load3
- htslib::sam_itr_queryi
- htslib::sam_itr_querys
- htslib::sam_itr_regarray
- htslib::sam_itr_regions
- htslib::sam_open_mode
- htslib::sam_open_mode_opts
- htslib::sam_parse1
- htslib::sam_parse_cigar
- htslib::sam_parse_region
- htslib::sam_passes_filter
- htslib::sam_prob_realn
- htslib::sam_read1
- htslib::sam_write1
- htslib::scanf
- htslib::scanf1
- htslib::seed48
- htslib::seed48_r
- htslib::select
- htslib::setbuf
- htslib::setbuffer
- htslib::setenv
- htslib::setlinebuf
- htslib::setstate
- htslib::setstate_r
- htslib::setvbuf
- htslib::snprintf
- htslib::sprintf
- htslib::srand
- htslib::srand48
- htslib::srand48_r
- htslib::srandom
- htslib::srandom_r
- htslib::sscanf
- htslib::sscanf1
- htslib::stpcpy
- htslib::stpncpy
- htslib::strcasecmp
- htslib::strcasecmp_l
- htslib::strcat
- htslib::strchr
- htslib::strcmp
- htslib::strcoll
- htslib::strcoll_l
- htslib::strcpy
- htslib::strcspn
- htslib::strdup
- htslib::strerror
- htslib::strerror_l
- htslib::strerror_r
- htslib::stringify_argv
- htslib::strlen
- htslib::strncasecmp
- htslib::strncasecmp_l
- htslib::strncat
- htslib::strncmp
- htslib::strncpy
- htslib::strndup
- htslib::strnlen
- htslib::strpbrk
- htslib::strrchr
- htslib::strsep
- htslib::strsignal
- htslib::strspn
- htslib::strstr
- htslib::strtod
- htslib::strtof
- htslib::strtoimax
- htslib::strtok
- htslib::strtok_r
- htslib::strtol
- htslib::strtoll
- htslib::strtoq
- htslib::strtoul
- htslib::strtoull
- htslib::strtoumax
- htslib::strtouq
- htslib::strxfrm
- htslib::strxfrm_l
- htslib::system
- htslib::tbx_destroy
- htslib::tbx_index
- htslib::tbx_index_build
- htslib::tbx_index_build2
- htslib::tbx_index_build3
- htslib::tbx_index_load
- htslib::tbx_index_load2
- htslib::tbx_index_load3
- htslib::tbx_name2id
- htslib::tbx_readrec
- htslib::tbx_seqnames
- htslib::tempnam
- htslib::tmpfile
- htslib::tmpnam
- htslib::tmpnam_r
- htslib::ungetc
- htslib::unsetenv
- htslib::valloc
- htslib::vcf_format
- htslib::vcf_hdr_read
- htslib::vcf_hdr_write
- htslib::vcf_open_mode
- htslib::vcf_parse
- htslib::vcf_read
- htslib::vcf_write
- htslib::vcf_write_line
- htslib::vdprintf
- htslib::vfprintf
- htslib::vfscanf
- htslib::vfscanf1
- htslib::vprintf
- htslib::vscanf
- htslib::vscanf1
- htslib::vsnprintf
- htslib::vsprintf
- htslib::vsscanf
- htslib::vsscanf1
- htslib::wcstoimax
- htslib::wcstombs
- htslib::wcstoumax
- htslib::wctomb
- utils::copy_memory
- utils::path_as_bytes
- utils::path_to_cstring
Type Aliases
- bam::pileup::Alignments
- bcf::header::SampleSubset
- errors::Result
- htslib::FILE
- htslib::SAM_hdr
- htslib::_Float32
- htslib::_Float32x
- htslib::_Float64
- htslib::_Float64x
- htslib::_IO_lock_t
- htslib::__FILE
- htslib::__blkcnt64_t
- htslib::__blkcnt_t
- htslib::__blksize_t
- htslib::__builtin_va_list
- htslib::__caddr_t
- htslib::__clock_t
- htslib::__clockid_t
- htslib::__compar_fn_t
- htslib::__daddr_t
- htslib::__dev_t
- htslib::__fd_mask
- htslib::__fpos64_t
- htslib::__fpos_t
- htslib::__fsblkcnt64_t
- htslib::__fsblkcnt_t
- htslib::__fsfilcnt64_t
- htslib::__fsfilcnt_t
- htslib::__fsword_t
- htslib::__gid_t
- htslib::__gnuc_va_list
- htslib::__gwchar_t
- htslib::__id_t
- htslib::__ino64_t
- htslib::__ino_t
- htslib::__int16_t
- htslib::__int32_t
- htslib::__int64_t
- htslib::__int8_t
- htslib::__int_least16_t
- htslib::__int_least32_t
- htslib::__int_least64_t
- htslib::__int_least8_t
- htslib::__intmax_t
- htslib::__intptr_t
- htslib::__key_t
- htslib::__locale_t
- htslib::__loff_t
- htslib::__mode_t
- htslib::__nlink_t
- htslib::__off64_t
- htslib::__off_t
- htslib::__pid_t
- htslib::__pthread_list_t
- htslib::__pthread_slist_t
- htslib::__quad_t
- htslib::__rlim64_t
- htslib::__rlim_t
- htslib::__sig_atomic_t
- htslib::__socklen_t
- htslib::__ssize_t
- htslib::__suseconds64_t
- htslib::__suseconds_t
- htslib::__syscall_slong_t
- htslib::__syscall_ulong_t
- htslib::__thrd_t
- htslib::__time64_t
- htslib::__time_t
- htslib::__timer_t
- htslib::__tss_t
- htslib::__u_char
- htslib::__u_int
- htslib::__u_long
- htslib::__u_quad_t
- htslib::__u_short
- htslib::__uid_t
- htslib::__uint16_t
- htslib::__uint32_t
- htslib::__uint64_t
- htslib::__uint8_t
- htslib::__uint_least16_t
- htslib::__uint_least32_t
- htslib::__uint_least64_t
- htslib::__uint_least8_t
- htslib::__uintmax_t
- htslib::__useconds_t
- htslib::bam_hdr_t
- htslib::bam_mplp_t
- htslib::bam_plp_auto_f
- htslib::bam_plp_t
- htslib::bcf_sr_error
- htslib::bcf_sr_opt_t
- htslib::bcf_variant_match
- htslib::blkcnt_t
- htslib::blksize_t
- htslib::caddr_t
- htslib::clock_t
- htslib::clockid_t
- htslib::cram_block_method
- htslib::cram_content_type
- htslib::daddr_t
- htslib::dev_t
- htslib::fai_format_options
- htslib::fai_load_options
- htslib::fd_mask
- htslib::fpos_t
- htslib::fsblkcnt_t
- htslib::fsfilcnt_t
- htslib::fsid_t
- htslib::gid_t
- htslib::htsCompression
- htslib::htsExactFormat
- htslib::htsFormatCategory
- htslib::htsLogLevel
- htslib::htsRealnFlags
- htslib::hts_fmt_option
- htslib::hts_id2name_f
- htslib::hts_itr_multi_query_func
- htslib::hts_itr_multi_t
- htslib::hts_itr_query_func
- htslib::hts_name2id_f
- htslib::hts_pair32_t
- htslib::hts_pos_t
- htslib::hts_profile_option
- htslib::hts_readrec_func
- htslib::hts_seek_func
- htslib::hts_tell_func
- htslib::id_t
- htslib::ino_t
- htslib::int_fast16_t
- htslib::int_fast32_t
- htslib::int_fast64_t
- htslib::int_fast8_t
- htslib::int_least16_t
- htslib::int_least32_t
- htslib::int_least64_t
- htslib::int_least8_t
- htslib::intmax_t
- htslib::key_t
- htslib::kgets_func
- htslib::kgets_func2
- htslib::locale_t
- htslib::loff_t
- htslib::mode_t
- htslib::nlink_t
- htslib::off_t
- htslib::pid_t
- htslib::pthread_key_t
- htslib::pthread_once_t
- htslib::pthread_spinlock_t
- htslib::pthread_t
- htslib::quad_t
- htslib::register_t
- htslib::samFile
- htslib::sam_fields
- htslib::sigset_t
- htslib::suseconds_t
- htslib::time_t
- htslib::timer_t
- htslib::u_char
- htslib::u_int
- htslib::u_int16_t
- htslib::u_int32_t
- htslib::u_int64_t
- htslib::u_int8_t
- htslib::u_long
- htslib::u_quad_t
- htslib::u_short
- htslib::uid_t
- htslib::uint
- htslib::uint16_u
- htslib::uint32_u
- htslib::uint64_u
- htslib::uint_fast16_t
- htslib::uint_fast32_t
- htslib::uint_fast64_t
- htslib::uint_fast8_t
- htslib::uint_least16_t
- htslib::uint_least32_t
- htslib::uint_least64_t
- htslib::uint_least8_t
- htslib::uintmax_t
- htslib::ulong
- htslib::ushort
- htslib::va_list
- htslib::vcfFile
- htslib::wchar_t
Statics
- htslib::bam_cigar_table
- htslib::bcf_float_missing
- htslib::bcf_float_vector_end
- htslib::bcf_type_shift
- htslib::hts_verbose
- htslib::seq_nt16_int
- htslib::seq_nt16_str
- htslib::seq_nt16_table
- htslib::stderr
- htslib::stdin
- htslib::stdout
- htslib::tbx_conf_bed
- htslib::tbx_conf_gff
- htslib::tbx_conf_psltbl
- htslib::tbx_conf_sam
- htslib::tbx_conf_vcf
Constants
- bcf::synced::pairing::ANY
- bcf::synced::pairing::BOTH
- bcf::synced::pairing::BOTH_REF
- bcf::synced::pairing::EXACT
- bcf::synced::pairing::INDELS
- bcf::synced::pairing::INDEL_REF
- bcf::synced::pairing::SNPS
- bcf::synced::pairing::SNP_REF
- bcf::synced::pairing::SOME
- htslib::AIO_PRIO_DELTA_MAX
- htslib::ARG_MAX
- htslib::BAM_CBACK
- htslib::BAM_CDEL
- htslib::BAM_CDIFF
- htslib::BAM_CEQUAL
- htslib::BAM_CHARD_CLIP
- htslib::BAM_CIGAR_MASK
- htslib::BAM_CIGAR_SHIFT
- htslib::BAM_CIGAR_STR
- htslib::BAM_CIGAR_TYPE
- htslib::BAM_CINS
- htslib::BAM_CMATCH
- htslib::BAM_CPAD
- htslib::BAM_CREF_SKIP
- htslib::BAM_CSOFT_CLIP
- htslib::BAM_FDUP
- htslib::BAM_FMREVERSE
- htslib::BAM_FMUNMAP
- htslib::BAM_FPAIRED
- htslib::BAM_FPROPER_PAIR
- htslib::BAM_FQCFAIL
- htslib::BAM_FREAD1
- htslib::BAM_FREAD2
- htslib::BAM_FREVERSE
- htslib::BAM_FSECONDARY
- htslib::BAM_FSUPPLEMENTARY
- htslib::BAM_FUNMAP
- htslib::BAM_USER_OWNS_DATA
- htslib::BAM_USER_OWNS_STRUCT
- htslib::BCF1_DIRTY_ALS
- htslib::BCF1_DIRTY_FLT
- htslib::BCF1_DIRTY_ID
- htslib::BCF1_DIRTY_INF
- htslib::BCF_BT_CHAR
- htslib::BCF_BT_FLOAT
- htslib::BCF_BT_INT16
- htslib::BCF_BT_INT32
- htslib::BCF_BT_INT64
- htslib::BCF_BT_INT8
- htslib::BCF_BT_NULL
- htslib::BCF_DT_CTG
- htslib::BCF_DT_ID
- htslib::BCF_DT_SAMPLE
- htslib::BCF_ERR_CHAR
- htslib::BCF_ERR_CTG_INVALID
- htslib::BCF_ERR_CTG_UNDEF
- htslib::BCF_ERR_LIMITS
- htslib::BCF_ERR_NCOLS
- htslib::BCF_ERR_TAG_INVALID
- htslib::BCF_ERR_TAG_UNDEF
- htslib::BCF_HL_CTG
- htslib::BCF_HL_FLT
- htslib::BCF_HL_FMT
- htslib::BCF_HL_GEN
- htslib::BCF_HL_INFO
- htslib::BCF_HL_STR
- htslib::BCF_HT_FLAG
- htslib::BCF_HT_INT
- htslib::BCF_HT_LONG
- htslib::BCF_HT_REAL
- htslib::BCF_HT_STR
- htslib::BCF_MAX_BT_INT16
- htslib::BCF_MAX_BT_INT32
- htslib::BCF_MAX_BT_INT8
- htslib::BCF_MIN_BT_INT16
- htslib::BCF_MIN_BT_INT32
- htslib::BCF_MIN_BT_INT8
- htslib::BCF_SR_PAIR_ANY
- htslib::BCF_SR_PAIR_BOTH
- htslib::BCF_SR_PAIR_BOTH_REF
- htslib::BCF_SR_PAIR_EXACT
- htslib::BCF_SR_PAIR_INDELS
- htslib::BCF_SR_PAIR_INDEL_REF
- htslib::BCF_SR_PAIR_SNPS
- htslib::BCF_SR_PAIR_SNP_REF
- htslib::BCF_SR_PAIR_SOME
- htslib::BCF_UN_ALL
- htslib::BCF_UN_FLT
- htslib::BCF_UN_FMT
- htslib::BCF_UN_IND
- htslib::BCF_UN_INFO
- htslib::BCF_UN_SHR
- htslib::BCF_UN_STR
- htslib::BCF_VL_A
- htslib::BCF_VL_FIXED
- htslib::BCF_VL_G
- htslib::BCF_VL_R
- htslib::BCF_VL_VAR
- htslib::BC_BASE_MAX
- htslib::BC_DIM_MAX
- htslib::BC_SCALE_MAX
- htslib::BC_STRING_MAX
- htslib::BGZF_BLOCK_SIZE
- htslib::BGZF_ERR_CRC
- htslib::BGZF_ERR_HEADER
- htslib::BGZF_ERR_IO
- htslib::BGZF_ERR_MISUSE
- htslib::BGZF_ERR_MT
- htslib::BGZF_ERR_ZLIB
- htslib::BGZF_MAX_BLOCK_SIZE
- htslib::BIG_ENDIAN
- htslib::BUFSIZ
- htslib::BYTE_ORDER
- htslib::CHARCLASS_NAME_MAX
- htslib::COLLAPSE_ANY
- htslib::COLLAPSE_BOTH
- htslib::COLLAPSE_INDELS
- htslib::COLLAPSE_NONE
- htslib::COLLAPSE_SNPS
- htslib::COLLAPSE_SOME
- htslib::COLL_WEIGHTS_MAX
- htslib::DELAYTIMER_MAX
- htslib::E2BIG
- htslib::EACCES
- htslib::EADDRINUSE
- htslib::EADDRNOTAVAIL
- htslib::EADV
- htslib::EAFNOSUPPORT
- htslib::EAGAIN
- htslib::EALREADY
- htslib::EBADE
- htslib::EBADF
- htslib::EBADFD
- htslib::EBADMSG
- htslib::EBADR
- htslib::EBADRQC
- htslib::EBADSLT
- htslib::EBFONT
- htslib::EBUSY
- htslib::ECANCELED
- htslib::ECHILD
- htslib::ECHRNG
- htslib::ECOMM
- htslib::ECONNABORTED
- htslib::ECONNREFUSED
- htslib::ECONNRESET
- htslib::EDEADLK
- htslib::EDEADLOCK
- htslib::EDESTADDRREQ
- htslib::EDOM
- htslib::EDOTDOT
- htslib::EDQUOT
- htslib::EEXIST
- htslib::EFAULT
- htslib::EFBIG
- htslib::EHOSTDOWN
- htslib::EHOSTUNREACH
- htslib::EHWPOISON
- htslib::EIDRM
- htslib::EILSEQ
- htslib::EINPROGRESS
- htslib::EINTR
- htslib::EINVAL
- htslib::EIO
- htslib::EISCONN
- htslib::EISDIR
- htslib::EISNAM
- htslib::EKEYEXPIRED
- htslib::EKEYREJECTED
- htslib::EKEYREVOKED
- htslib::EL2HLT
- htslib::EL2NSYNC
- htslib::EL3HLT
- htslib::EL3RST
- htslib::ELIBACC
- htslib::ELIBBAD
- htslib::ELIBEXEC
- htslib::ELIBMAX
- htslib::ELIBSCN
- htslib::ELNRNG
- htslib::ELOOP
- htslib::EMEDIUMTYPE
- htslib::EMFILE
- htslib::EMLINK
- htslib::EMSGSIZE
- htslib::EMULTIHOP
- htslib::ENAMETOOLONG
- htslib::ENAVAIL
- htslib::ENETDOWN
- htslib::ENETRESET
- htslib::ENETUNREACH
- htslib::ENFILE
- htslib::ENOANO
- htslib::ENOBUFS
- htslib::ENOCSI
- htslib::ENODATA
- htslib::ENODEV
- htslib::ENOENT
- htslib::ENOEXEC
- htslib::ENOKEY
- htslib::ENOLCK
- htslib::ENOLINK
- htslib::ENOMEDIUM
- htslib::ENOMEM
- htslib::ENOMSG
- htslib::ENONET
- htslib::ENOPKG
- htslib::ENOPROTOOPT
- htslib::ENOSPC
- htslib::ENOSR
- htslib::ENOSTR
- htslib::ENOSYS
- htslib::ENOTBLK
- htslib::ENOTCONN
- htslib::ENOTDIR
- htslib::ENOTEMPTY
- htslib::ENOTNAM
- htslib::ENOTRECOVERABLE
- htslib::ENOTSOCK
- htslib::ENOTSUP
- htslib::ENOTTY
- htslib::ENOTUNIQ
- htslib::ENXIO
- htslib::EOF
- htslib::EOPNOTSUPP
- htslib::EOVERFLOW
- htslib::EOWNERDEAD
- htslib::EPERM
- htslib::EPFNOSUPPORT
- htslib::EPIPE
- htslib::EPROTO
- htslib::EPROTONOSUPPORT
- htslib::EPROTOTYPE
- htslib::ERANGE
- htslib::EREMCHG
- htslib::EREMOTE
- htslib::EREMOTEIO
- htslib::ERESTART
- htslib::ERFKILL
- htslib::EROFS
- htslib::ESHUTDOWN
- htslib::ESOCKTNOSUPPORT
- htslib::ESPIPE
- htslib::ESRCH
- htslib::ESRMNT
- htslib::ESTALE
- htslib::ESTRPIPE
- htslib::ETIME
- htslib::ETIMEDOUT
- htslib::ETOOMANYREFS
- htslib::ETXTBSY
- htslib::EUCLEAN
- htslib::EUNATCH
- htslib::EUSERS
- htslib::EWOULDBLOCK
- htslib::EXDEV
- htslib::EXFULL
- htslib::EXIT_FAILURE
- htslib::EXIT_SUCCESS
- htslib::EXPR_NEST_MAX
- htslib::FD_SETSIZE
- htslib::FILENAME_MAX
- htslib::FOPEN_MAX
- htslib::FT_BCF
- htslib::FT_BCF_GZ
- htslib::FT_GZ
- htslib::FT_STDIN
- htslib::FT_UNKN
- htslib::FT_VCF
- htslib::FT_VCF_GZ
- htslib::GT_HAPL_A
- htslib::GT_HAPL_R
- htslib::GT_HET_AA
- htslib::GT_HET_RA
- htslib::GT_HOM_AA
- htslib::GT_HOM_RR
- htslib::GT_UNKN
- htslib::HAVE___BUILTIN_CLZ
- htslib::HOST_NAME_MAX
- htslib::HTS_ALLOW_UNALIGNED
- htslib::HTS_FEATURE_BZIP2
- htslib::HTS_FEATURE_CC
- htslib::HTS_FEATURE_CFLAGS
- htslib::HTS_FEATURE_CONFIGURE
- htslib::HTS_FEATURE_CPPFLAGS
- htslib::HTS_FEATURE_GCS
- htslib::HTS_FEATURE_HTSCODECS
- htslib::HTS_FEATURE_LDFLAGS
- htslib::HTS_FEATURE_LIBCURL
- htslib::HTS_FEATURE_LIBDEFLATE
- htslib::HTS_FEATURE_LZMA
- htslib::HTS_FEATURE_PLUGINS
- htslib::HTS_FEATURE_S3
- htslib::HTS_FMT_BAI
- htslib::HTS_FMT_CRAI
- htslib::HTS_FMT_CSI
- htslib::HTS_FMT_FAI
- htslib::HTS_FMT_TBI
- htslib::HTS_IDX_DELIM
- htslib::HTS_IDX_NOCOOR
- htslib::HTS_IDX_NONE
- htslib::HTS_IDX_REST
- htslib::HTS_IDX_SAVE_REMOTE
- htslib::HTS_IDX_SILENT_FAIL
- htslib::HTS_IDX_START
- htslib::HTS_MOD_REPORT_UNCHECKED
- htslib::HTS_MOD_UNCHECKED
- htslib::HTS_MOD_UNKNOWN
- htslib::HTS_PARSE_LIST
- htslib::HTS_PARSE_ONE_COORD
- htslib::HTS_PARSE_THOUSANDS_SEP
- htslib::HTS_PATH_SEPARATOR_CHAR
- htslib::HTS_PATH_SEPARATOR_STR
- htslib::HTS_RESIZE_CLEAR
- htslib::HTS_VERSION
- htslib::INT16_MAX
- htslib::INT16_MIN
- htslib::INT32_MAX
- htslib::INT32_MIN
- htslib::INT8_MAX
- htslib::INT8_MIN
- htslib::INTPTR_MAX
- htslib::INTPTR_MIN
- htslib::INT_FAST16_MAX
- htslib::INT_FAST16_MIN
- htslib::INT_FAST32_MAX
- htslib::INT_FAST32_MIN
- htslib::INT_FAST8_MAX
- htslib::INT_FAST8_MIN
- htslib::INT_LEAST16_MAX
- htslib::INT_LEAST16_MIN
- htslib::INT_LEAST32_MAX
- htslib::INT_LEAST32_MIN
- htslib::INT_LEAST8_MAX
- htslib::INT_LEAST8_MIN
- htslib::LINE_MAX
- htslib::LINK_MAX
- htslib::LITTLE_ENDIAN
- htslib::LOGIN_NAME_MAX
- htslib::L_ctermid
- htslib::L_tmpnam
- htslib::MAX_CANON
- htslib::MAX_INPUT
- htslib::MB_LEN_MAX
- htslib::MQ_PRIO_MAX
- htslib::NAME_MAX
- htslib::NGROUPS_MAX
- htslib::NR_OPEN
- htslib::PATH_MAX
- htslib::PDP_ENDIAN
- htslib::PIPE_BUF
- htslib::PRIX16
- htslib::PRIX32
- htslib::PRIX64
- htslib::PRIX8
- htslib::PRIXFAST64
- htslib::PRIXFAST8
- htslib::PRIXLEAST16
- htslib::PRIXLEAST32
- htslib::PRIXLEAST64
- htslib::PRIXLEAST8
- htslib::PRIXMAX
- htslib::PRId16
- htslib::PRId32
- htslib::PRId64
- htslib::PRId8
- htslib::PRIdFAST64
- htslib::PRIdFAST8
- htslib::PRIdLEAST16
- htslib::PRIdLEAST32
- htslib::PRIdLEAST64
- htslib::PRIdLEAST8
- htslib::PRIdMAX
- htslib::PRIhts_pos
- htslib::PRIi16
- htslib::PRIi32
- htslib::PRIi64
- htslib::PRIi8
- htslib::PRIiFAST64
- htslib::PRIiFAST8
- htslib::PRIiLEAST16
- htslib::PRIiLEAST32
- htslib::PRIiLEAST64
- htslib::PRIiLEAST8
- htslib::PRIiMAX
- htslib::PRIo16
- htslib::PRIo32
- htslib::PRIo64
- htslib::PRIo8
- htslib::PRIoFAST64
- htslib::PRIoFAST8
- htslib::PRIoLEAST16
- htslib::PRIoLEAST32
- htslib::PRIoLEAST64
- htslib::PRIoLEAST8
- htslib::PRIoMAX
- htslib::PRIu16
- htslib::PRIu32
- htslib::PRIu64
- htslib::PRIu8
- htslib::PRIuFAST64
- htslib::PRIuFAST8
- htslib::PRIuLEAST16
- htslib::PRIuLEAST32
- htslib::PRIuLEAST64
- htslib::PRIuLEAST8
- htslib::PRIuMAX
- htslib::PRIx16
- htslib::PRIx32
- htslib::PRIx64
- htslib::PRIx8
- htslib::PRIxFAST64
- htslib::PRIxFAST8
- htslib::PRIxLEAST16
- htslib::PRIxLEAST32
- htslib::PRIxLEAST64
- htslib::PRIxLEAST8
- htslib::PRIxMAX
- htslib::PTHREAD_DESTRUCTOR_ITERATIONS
- htslib::PTHREAD_KEYS_MAX
- htslib::PTHREAD_STACK_MIN
- htslib::PTRDIFF_MAX
- htslib::PTRDIFF_MIN
- htslib::P_tmpdir
- htslib::RAND_MAX
- htslib::RE_DUP_MAX
- htslib::RTSIG_MAX
- htslib::SAM_FORMAT_VERSION
- htslib::SCNd16
- htslib::SCNd32
- htslib::SCNd64
- htslib::SCNd8
- htslib::SCNdFAST64
- htslib::SCNdFAST8
- htslib::SCNdLEAST16
- htslib::SCNdLEAST32
- htslib::SCNdLEAST64
- htslib::SCNdLEAST8
- htslib::SCNdMAX
- htslib::SCNi16
- htslib::SCNi32
- htslib::SCNi64
- htslib::SCNi8
- htslib::SCNiFAST64
- htslib::SCNiFAST8
- htslib::SCNiLEAST16
- htslib::SCNiLEAST32
- htslib::SCNiLEAST64
- htslib::SCNiLEAST8
- htslib::SCNiMAX
- htslib::SCNo16
- htslib::SCNo32
- htslib::SCNo64
- htslib::SCNo8
- htslib::SCNoFAST64
- htslib::SCNoFAST8
- htslib::SCNoLEAST16
- htslib::SCNoLEAST32
- htslib::SCNoLEAST64
- htslib::SCNoLEAST8
- htslib::SCNoMAX
- htslib::SCNu16
- htslib::SCNu32
- htslib::SCNu64
- htslib::SCNu8
- htslib::SCNuFAST64
- htslib::SCNuFAST8
- htslib::SCNuLEAST16
- htslib::SCNuLEAST32
- htslib::SCNuLEAST64
- htslib::SCNuLEAST8
- htslib::SCNuMAX
- htslib::SCNx16
- htslib::SCNx32
- htslib::SCNx64
- htslib::SCNx8
- htslib::SCNxFAST64
- htslib::SCNxFAST8
- htslib::SCNxLEAST16
- htslib::SCNxLEAST32
- htslib::SCNxLEAST64
- htslib::SCNxLEAST8
- htslib::SCNxMAX
- htslib::SEEK_CUR
- htslib::SEEK_END
- htslib::SEEK_SET
- htslib::SEM_VALUE_MAX
- htslib::SIG_ATOMIC_MAX
- htslib::SIG_ATOMIC_MIN
- htslib::SIZE_MAX
- htslib::TBX_GENERIC
- htslib::TBX_MAX_SHIFT
- htslib::TBX_SAM
- htslib::TBX_UCSC
- htslib::TBX_VCF
- htslib::TMP_MAX
- htslib::TTY_NAME_MAX
- htslib::UINT16_MAX
- htslib::UINT32_MAX
- htslib::UINT8_MAX
- htslib::UINTPTR_MAX
- htslib::UINT_FAST16_MAX
- htslib::UINT_FAST32_MAX
- htslib::UINT_FAST8_MAX
- htslib::UINT_LEAST16_MAX
- htslib::UINT_LEAST32_MAX
- htslib::UINT_LEAST8_MAX
- htslib::VCF_ANY
- htslib::VCF_BND
- htslib::VCF_DEL
- htslib::VCF_INDEL
- htslib::VCF_INS
- htslib::VCF_MNP
- htslib::VCF_OTHER
- htslib::VCF_OVERLAP
- htslib::VCF_REF
- htslib::VCF_SNP
- htslib::WCONTINUED
- htslib::WEXITED
- htslib::WINT_MAX
- htslib::WINT_MIN
- htslib::WNOHANG
- htslib::WNOWAIT
- htslib::WSTOPPED
- htslib::WUNTRACED
- htslib::XATTR_LIST_MAX
- htslib::XATTR_NAME_MAX
- htslib::XATTR_SIZE_MAX
- htslib::_ALLOCA_H
- htslib::_ASSERT_H
- htslib::_ATFILE_SOURCE
- htslib::_BITS_BYTESWAP_H
- htslib::_BITS_ENDIANNESS_H
- htslib::_BITS_ENDIAN_H
- htslib::_BITS_ERRNO_H
- htslib::_BITS_POSIX1_LIM_H
- htslib::_BITS_POSIX2_LIM_H
- htslib::_BITS_PTHREADTYPES_ARCH_H
- htslib::_BITS_PTHREADTYPES_COMMON_H
- htslib::_BITS_STDINT_INTN_H
- htslib::_BITS_STDINT_UINTN_H
- htslib::_BITS_STDIO_LIM_H
- htslib::_BITS_TIME64_H
- htslib::_BITS_TYPESIZES_H
- htslib::_BITS_TYPES_H
- htslib::_BITS_TYPES_LOCALE_T_H
- htslib::_BITS_TYPES___LOCALE_T_H
- htslib::_BITS_UINTN_IDENTITY_H
- htslib::_BITS_WCHAR_H
- htslib::_DEFAULT_SOURCE
- htslib::_ENDIAN_H
- htslib::_ERRNO_H
- htslib::_FEATURES_H
- htslib::_INTTYPES_H
- htslib::_IOFBF
- htslib::_IOLBF
- htslib::_IONBF
- htslib::_IO_EOF_SEEN
- htslib::_IO_ERR_SEEN
- htslib::_IO_USER_LOCK
- htslib::_LIBC_LIMITS_H_
- htslib::_POSIX2_BC_BASE_MAX
- htslib::_POSIX2_BC_DIM_MAX
- htslib::_POSIX2_BC_SCALE_MAX
- htslib::_POSIX2_BC_STRING_MAX
- htslib::_POSIX2_CHARCLASS_NAME_MAX
- htslib::_POSIX2_COLL_WEIGHTS_MAX
- htslib::_POSIX2_EXPR_NEST_MAX
- htslib::_POSIX2_LINE_MAX
- htslib::_POSIX2_RE_DUP_MAX
- htslib::_POSIX_AIO_LISTIO_MAX
- htslib::_POSIX_AIO_MAX
- htslib::_POSIX_ARG_MAX
- htslib::_POSIX_CHILD_MAX
- htslib::_POSIX_CLOCKRES_MIN
- htslib::_POSIX_C_SOURCE
- htslib::_POSIX_DELAYTIMER_MAX
- htslib::_POSIX_HOST_NAME_MAX
- htslib::_POSIX_LINK_MAX
- htslib::_POSIX_LOGIN_NAME_MAX
- htslib::_POSIX_MAX_CANON
- htslib::_POSIX_MAX_INPUT
- htslib::_POSIX_MQ_OPEN_MAX
- htslib::_POSIX_MQ_PRIO_MAX
- htslib::_POSIX_NAME_MAX
- htslib::_POSIX_NGROUPS_MAX
- htslib::_POSIX_OPEN_MAX
- htslib::_POSIX_PATH_MAX
- htslib::_POSIX_PIPE_BUF
- htslib::_POSIX_RE_DUP_MAX
- htslib::_POSIX_RTSIG_MAX
- htslib::_POSIX_SEM_NSEMS_MAX
- htslib::_POSIX_SEM_VALUE_MAX
- htslib::_POSIX_SIGQUEUE_MAX
- htslib::_POSIX_SOURCE
- htslib::_POSIX_SSIZE_MAX
- htslib::_POSIX_STREAM_MAX
- htslib::_POSIX_SYMLINK_MAX
- htslib::_POSIX_SYMLOOP_MAX
- htslib::_POSIX_THREAD_DESTRUCTOR_ITERATIONS
- htslib::_POSIX_THREAD_KEYS_MAX
- htslib::_POSIX_THREAD_THREADS_MAX
- htslib::_POSIX_TIMER_MAX
- htslib::_POSIX_TTY_NAME_MAX
- htslib::_POSIX_TZNAME_MAX
- htslib::_STDC_PREDEF_H
- htslib::_STDINT_H
- htslib::_STDIO_H
- htslib::_STDLIB_H
- htslib::_STRINGS_H
- htslib::_STRING_H
- htslib::_STRUCT_TIMESPEC
- htslib::_SYS_CDEFS_H
- htslib::_SYS_SELECT_H
- htslib::_SYS_TYPES_H
- htslib::_THREAD_MUTEX_INTERNAL_H
- htslib::_THREAD_SHARED_TYPES_H
- htslib::__BIG_ENDIAN
- htslib::__BIT_TYPES_DEFINED__
- htslib::__BYTE_ORDER
- htslib::__FD_SETSIZE
- htslib::__FILE_defined
- htslib::__FLOAT_WORD_ORDER
- htslib::__GLIBC_MINOR__
- htslib::__GLIBC_USE_DEPRECATED_GETS
- htslib::__GLIBC_USE_DEPRECATED_SCANF
- htslib::__GLIBC_USE_IEC_60559_BFP_EXT
- htslib::__GLIBC_USE_IEC_60559_BFP_EXT_C2X
- htslib::__GLIBC_USE_IEC_60559_EXT
- htslib::__GLIBC_USE_IEC_60559_FUNCS_EXT
- htslib::__GLIBC_USE_IEC_60559_FUNCS_EXT_C2X
- htslib::__GLIBC_USE_IEC_60559_TYPES_EXT
- htslib::__GLIBC_USE_ISOC2X
- htslib::__GLIBC_USE_LIB_EXT2
- htslib::__GLIBC__
- htslib::__GNUC_VA_LIST
- htslib::__GNU_LIBRARY__
- htslib::__HAVE_DISTINCT_FLOAT128
- htslib::__HAVE_DISTINCT_FLOAT128X
- htslib::__HAVE_DISTINCT_FLOAT16
- htslib::__HAVE_DISTINCT_FLOAT32
- htslib::__HAVE_DISTINCT_FLOAT32X
- htslib::__HAVE_DISTINCT_FLOAT64
- htslib::__HAVE_DISTINCT_FLOAT64X
- htslib::__HAVE_FLOAT128
- htslib::__HAVE_FLOAT128X
- htslib::__HAVE_FLOAT16
- htslib::__HAVE_FLOAT32
- htslib::__HAVE_FLOAT32X
- htslib::__HAVE_FLOAT64
- htslib::__HAVE_FLOAT64X
- htslib::__HAVE_FLOAT64X_LONG_DOUBLE
- htslib::__HAVE_FLOATN_NOT_TYPEDEF
- htslib::__HAVE_GENERIC_SELECTION
- htslib::__KERNEL_OLD_TIMEVAL_MATCHES_TIMEVAL64
- htslib::__LDOUBLE_REDIRECTS_TO_FLOAT128_ABI
- htslib::__LITTLE_ENDIAN
- htslib::__PDP_ENDIAN
- htslib::__PRI64_PREFIX
- htslib::__PTHREAD_MUTEX_HAVE_PREV
- htslib::__RLIM_T_MATCHES_RLIM64_T
- htslib::__SIZEOF_PTHREAD_ATTR_T
- htslib::__SIZEOF_PTHREAD_BARRIERATTR_T
- htslib::__SIZEOF_PTHREAD_BARRIER_T
- htslib::__SIZEOF_PTHREAD_CONDATTR_T
- htslib::__SIZEOF_PTHREAD_COND_T
- htslib::__SIZEOF_PTHREAD_MUTEXATTR_T
- htslib::__SIZEOF_PTHREAD_MUTEX_T
- htslib::__SIZEOF_PTHREAD_RWLOCKATTR_T
- htslib::__SIZEOF_PTHREAD_RWLOCK_T
- htslib::__STATFS_MATCHES_STATFS64
- htslib::__STDC_IEC_559_COMPLEX__
- htslib::__STDC_IEC_559__
- htslib::__STDC_IEC_60559_BFP__
- htslib::__STDC_IEC_60559_COMPLEX__
- htslib::__STDC_ISO_10646__
- htslib::__TIMESIZE
- htslib::__USE_ATFILE
- htslib::__USE_FORTIFY_LEVEL
- htslib::__USE_ISOC11
- htslib::__USE_ISOC95
- htslib::__USE_ISOC99
- htslib::__USE_MISC
- htslib::__USE_POSIX
- htslib::__USE_POSIX199309
- htslib::__USE_POSIX199506
- htslib::__USE_POSIX2
- htslib::__USE_POSIX_IMPLICITLY
- htslib::__USE_XOPEN2K
- htslib::__USE_XOPEN2K8
- htslib::__WALL
- htslib::__WCLONE
- htslib::__WCOREFLAG
- htslib::__WNOTHREAD
- htslib::__WORDSIZE
- htslib::__WORDSIZE32_PTRDIFF_LONG
- htslib::__WORDSIZE32_SIZE_ULONG
- htslib::__WORDSIZE_TIME64_COMPAT32
- htslib::__W_CONTINUED
- htslib::____FILE_defined
- htslib::_____fpos64_t_defined
- htslib::_____fpos_t_defined
- htslib::____gwchar_t_defined
- htslib::____mbstate_t_defined
- htslib::__clock_t_defined
- htslib::__clockid_t_defined
- htslib::__glibc_c99_flexarr_available
- htslib::__have_pthread_attr_t
- htslib::__ldiv_t_defined
- htslib::__lldiv_t_defined
- htslib::__sigset_t_defined
- htslib::__struct_FILE_defined
- htslib::__time_t_defined
- htslib::__timer_t_defined
- htslib::__timeval_defined
- htslib::bcf_gt_missing
- htslib::bcf_int16_missing
- htslib::bcf_int16_vector_end
- htslib::bcf_int32_missing
- htslib::bcf_int32_vector_end
- htslib::bcf_int64_missing
- htslib::bcf_int64_vector_end
- htslib::bcf_int8_missing
- htslib::bcf_int8_vector_end
- htslib::bcf_sr_error_api_usage_error
- htslib::bcf_sr_error_bcf_read_error
- htslib::bcf_sr_error_file_type_error
- htslib::bcf_sr_error_header_error
- htslib::bcf_sr_error_idx_load_failed
- htslib::bcf_sr_error_no_eof
- htslib::bcf_sr_error_no_memory
- htslib::bcf_sr_error_noidx_error
- htslib::bcf_sr_error_not_bgzf
- htslib::bcf_sr_error_open_failed
- htslib::bcf_sr_error_vcf_parse_error
- htslib::bcf_sr_opt_t_BCF_SR_ALLOW_NO_IDX
- htslib::bcf_sr_opt_t_BCF_SR_PAIR_LOGIC
- htslib::bcf_sr_opt_t_BCF_SR_REGIONS_OVERLAP
- htslib::bcf_sr_opt_t_BCF_SR_REQUIRE_IDX
- htslib::bcf_sr_opt_t_BCF_SR_TARGETS_OVERLAP
- htslib::bcf_str_missing
- htslib::bcf_str_vector_end
- htslib::bcf_variant_match_bcf_match_exact
- htslib::bcf_variant_match_bcf_match_overlap
- htslib::bcf_variant_match_bcf_match_subset
- htslib::cram_block_method_CRAM_COMP_ARITH
- htslib::cram_block_method_CRAM_COMP_BZIP2
- htslib::cram_block_method_CRAM_COMP_FQZ
- htslib::cram_block_method_CRAM_COMP_GZIP
- htslib::cram_block_method_CRAM_COMP_LZMA
- htslib::cram_block_method_CRAM_COMP_RANS4x8
- htslib::cram_block_method_CRAM_COMP_RANSNx16
- htslib::cram_block_method_CRAM_COMP_RAW
- htslib::cram_block_method_CRAM_COMP_TOK3
- htslib::cram_block_method_CRAM_COMP_UNKNOWN
- htslib::cram_content_type_COMPRESSION_HEADER
- htslib::cram_content_type_CORE
- htslib::cram_content_type_CT_ERROR
- htslib::cram_content_type_EXTERNAL
- htslib::cram_content_type_FILE_HEADER
- htslib::cram_content_type_MAPPED_SLICE
- htslib::cram_content_type_UNMAPPED_SLICE
- htslib::fai_format_options_FAI_FASTA
- htslib::fai_format_options_FAI_FASTQ
- htslib::fai_format_options_FAI_NONE
- htslib::fai_load_options_FAI_CREATE
- htslib::htsCompression_bgzf
- htslib::htsCompression_bzip2_compression
- htslib::htsCompression_compression_maximum
- htslib::htsCompression_custom
- htslib::htsCompression_gzip
- htslib::htsCompression_no_compression
- htslib::htsCompression_razf_compression
- htslib::htsCompression_xz_compression
- htslib::htsCompression_zstd_compression
- htslib::htsExactFormat_bai
- htslib::htsExactFormat_bam
- htslib::htsExactFormat_bcf
- htslib::htsExactFormat_bed
- htslib::htsExactFormat_binary_format
- htslib::htsExactFormat_crai
- htslib::htsExactFormat_cram
- htslib::htsExactFormat_csi
- htslib::htsExactFormat_d4_format
- htslib::htsExactFormat_empty_format
- htslib::htsExactFormat_fai_format
- htslib::htsExactFormat_fasta_format
- htslib::htsExactFormat_fastq_format
- htslib::htsExactFormat_format_maximum
- htslib::htsExactFormat_fqi_format
- htslib::htsExactFormat_gzi
- htslib::htsExactFormat_hts_crypt4gh_format
- htslib::htsExactFormat_htsget
- htslib::htsExactFormat_json
- htslib::htsExactFormat_sam
- htslib::htsExactFormat_tbi
- htslib::htsExactFormat_text_format
- htslib::htsExactFormat_unknown_format
- htslib::htsExactFormat_vcf
- htslib::htsFormatCategory_category_maximum
- htslib::htsFormatCategory_index_file
- htslib::htsFormatCategory_region_list
- htslib::htsFormatCategory_sequence_data
- htslib::htsFormatCategory_unknown_category
- htslib::htsFormatCategory_variant_data
- htslib::htsLogLevel_HTS_LOG_DEBUG
- htslib::htsLogLevel_HTS_LOG_ERROR
- htslib::htsLogLevel_HTS_LOG_INFO
- htslib::htsLogLevel_HTS_LOG_OFF
- htslib::htsLogLevel_HTS_LOG_TRACE
- htslib::htsLogLevel_HTS_LOG_WARNING
- htslib::htsRealnFlags_BAQ_APPLY
- htslib::htsRealnFlags_BAQ_AUTO
- htslib::htsRealnFlags_BAQ_EXTEND
- htslib::htsRealnFlags_BAQ_GENAPSYS
- htslib::htsRealnFlags_BAQ_ILLUMINA
- htslib::htsRealnFlags_BAQ_ONT
- htslib::htsRealnFlags_BAQ_PACBIO
- htslib::htsRealnFlags_BAQ_PACBIOCCS
- htslib::htsRealnFlags_BAQ_REDO
- htslib::hts_fmt_option_CRAM_OPT_BASES_PER_SLICE
- htslib::hts_fmt_option_CRAM_OPT_DECODE_MD
- htslib::hts_fmt_option_CRAM_OPT_EMBED_REF
- htslib::hts_fmt_option_CRAM_OPT_IGNORE_MD5
- htslib::hts_fmt_option_CRAM_OPT_LOSSY_NAMES
- htslib::hts_fmt_option_CRAM_OPT_MULTI_SEQ_PER_SLICE
- htslib::hts_fmt_option_CRAM_OPT_NO_REF
- htslib::hts_fmt_option_CRAM_OPT_NTHREADS
- htslib::hts_fmt_option_CRAM_OPT_POS_DELTA
- htslib::hts_fmt_option_CRAM_OPT_PREFIX
- htslib::hts_fmt_option_CRAM_OPT_RANGE
- htslib::hts_fmt_option_CRAM_OPT_RANGE_NOSEEK
- htslib::hts_fmt_option_CRAM_OPT_REFERENCE
- htslib::hts_fmt_option_CRAM_OPT_REQUIRED_FIELDS
- htslib::hts_fmt_option_CRAM_OPT_SEQS_PER_SLICE
- htslib::hts_fmt_option_CRAM_OPT_SHARED_REF
- htslib::hts_fmt_option_CRAM_OPT_SLICES_PER_CONTAINER
- htslib::hts_fmt_option_CRAM_OPT_STORE_MD
- htslib::hts_fmt_option_CRAM_OPT_STORE_NM
- htslib::hts_fmt_option_CRAM_OPT_THREAD_POOL
- htslib::hts_fmt_option_CRAM_OPT_USE_ARITH
- htslib::hts_fmt_option_CRAM_OPT_USE_BZIP2
- htslib::hts_fmt_option_CRAM_OPT_USE_FQZ
- htslib::hts_fmt_option_CRAM_OPT_USE_LZMA
- htslib::hts_fmt_option_CRAM_OPT_USE_RANS
- htslib::hts_fmt_option_CRAM_OPT_USE_TOK
- htslib::hts_fmt_option_CRAM_OPT_VERBOSITY
- htslib::hts_fmt_option_CRAM_OPT_VERSION
- htslib::hts_fmt_option_FASTQ_OPT_AUX
- htslib::hts_fmt_option_FASTQ_OPT_BARCODE
- htslib::hts_fmt_option_FASTQ_OPT_CASAVA
- htslib::hts_fmt_option_FASTQ_OPT_NAME2
- htslib::hts_fmt_option_FASTQ_OPT_RNUM
- htslib::hts_fmt_option_HTS_OPT_BLOCK_SIZE
- htslib::hts_fmt_option_HTS_OPT_CACHE_SIZE
- htslib::hts_fmt_option_HTS_OPT_COMPRESSION_LEVEL
- htslib::hts_fmt_option_HTS_OPT_FILTER
- htslib::hts_fmt_option_HTS_OPT_NTHREADS
- htslib::hts_fmt_option_HTS_OPT_PROFILE
- htslib::hts_fmt_option_HTS_OPT_THREAD_POOL
- htslib::hts_profile_option_HTS_PROFILE_ARCHIVE
- htslib::hts_profile_option_HTS_PROFILE_FAST
- htslib::hts_profile_option_HTS_PROFILE_NORMAL
- htslib::hts_profile_option_HTS_PROFILE_SMALL
- htslib::sam_fields_SAM_AUX
- htslib::sam_fields_SAM_CIGAR
- htslib::sam_fields_SAM_FLAG
- htslib::sam_fields_SAM_MAPQ
- htslib::sam_fields_SAM_PNEXT
- htslib::sam_fields_SAM_POS
- htslib::sam_fields_SAM_QNAME
- htslib::sam_fields_SAM_QUAL
- htslib::sam_fields_SAM_RGAUX
- htslib::sam_fields_SAM_RNAME
- htslib::sam_fields_SAM_RNEXT
- htslib::sam_fields_SAM_SEQ
- htslib::sam_fields_SAM_TLEN