- c -

• check() : fieldarith.c
• check_bam_aux_get() : sam.c
• check_offset() : hfile.c
• cram_beta_decode_char() : cram_codecs.c
• cram_beta_decode_free() : cram_codecs.c
• cram_beta_decode_init() : cram_codecs.c
• cram_beta_decode_int() : cram_codecs.c
• cram_beta_encode_char() : cram_codecs.c
• cram_beta_encode_free() : cram_codecs.c
• cram_beta_encode_init() : cram_codecs.c
• cram_beta_encode_int() : cram_codecs.c
• cram_beta_encode_store() : cram_codecs.c
• cram_block_method2str() : cram_io.c , cram_io.h
• cram_byte_array_len_decode() : cram_codecs.c
• cram_byte_array_len_decode_free() : cram_codecs.c
• cram_byte_array_len_decode_init() : cram_codecs.c
• cram_byte_array_len_encode() : cram_codecs.c
• cram_byte_array_len_encode_free() : cram_codecs.c
• cram_byte_array_len_encode_init() : cram_codecs.c
• cram_byte_array_len_encode_store() : cram_codecs.c
• cram_byte_array_stop_decode_block() : cram_codecs.c
• cram_byte_array_stop_decode_free() : cram_codecs.c
• cram_byte_array_stop_decode_init() : cram_codecs.c
• cram_byte_array_stop_encode() : cram_codecs.c
• cram_byte_array_stop_encode_free() : cram_codecs.c
• cram_byte_array_stop_encode_init() : cram_codecs.c
• cram_byte_array_stop_encode_store() : cram_codecs.c
• cram_close() : cram_io.c , cram_io.h
• cram_codec_to_id() : cram_codecs.h , cram_codecs.c
• cram_compress_block() : cram_io.c , cram_io.h
• cram_content_type2str() : cram_io.c , cram_io.h
• cram_decode_compression_header() : cram_decode.c , cram_decode.h
• cram_decode_slice() : cram_decode.c , cram_decode.h
• cram_decode_slice_header() : cram_decode.c , cram_decode.h
• cram_decode_slice_mt() : cram_decode.c
• cram_decode_slice_thread() : cram_decode.c
• cram_decode_TD() : cram_decode.c
• cram_decoder_init() : cram_codecs.c , cram_codecs.h
• cram_dependent_data_series() : cram_decode.c
• cram_dopen() : cram_io.c , cram_io.h
• cram_encode_compression_header() : cram_encode.c , cram_encode.h
• cram_encode_container() : cram_encode.c , cram_encode.h
• cram_encode_slice_header() : cram_encode.c , cram_encode.h
• cram_encoder_init() : cram_codecs.c , cram_codecs.h
• cram_encoding2str() : cram_codecs.c , cram_codecs.h
• cram_eof() : cram_io.c , cram_io.h
• cram_external_decode_char() : cram_codecs.c
• cram_external_decode_free() : cram_codecs.c
• cram_external_decode_init() : cram_codecs.c
• cram_external_decode_int() : cram_codecs.c
• cram_external_encode_char() : cram_codecs.c
• cram_external_encode_free() : cram_codecs.c
• cram_external_encode_init() : cram_codecs.c
• cram_external_encode_int() : cram_codecs.c
• cram_external_encode_store() : cram_codecs.c
• cram_flush() : cram_io.c , cram_io.h
• cram_flush_container() : cram_io.c , cram_io.h
• cram_flush_container_mt() : cram_io.c , cram_io.h
• cram_flush_thread() : cram_io.c
• cram_free_block() : cram_io.c , cram_io.h
• cram_free_compression_header() : cram_io.c , cram_io.h
• cram_free_container() : cram_io.c , cram_io.h
• cram_free_file_def() : cram_io.c , cram_io.h
• cram_free_slice() : cram_io.c , cram_io.h
• cram_free_slice_header() : cram_io.c , cram_io.h
• cram_gamma_decode() : cram_codecs.c
• cram_gamma_decode_free() : cram_codecs.c
• cram_gamma_decode_init() : cram_codecs.c
• cram_get_bam_seq() : cram_decode.c , cram_decode.h
• cram_get_ref() : cram_io.c , cram_io.h
• cram_get_seq() : cram_decode.c , cram_decode.h
• cram_header_to_bam() : cram_samtools.c , cram_samtools.h
• cram_huffman_decode_char() : cram_codecs.c
• cram_huffman_decode_char0() : cram_codecs.c
• cram_huffman_decode_free() : cram_codecs.c
• cram_huffman_decode_init() : cram_codecs.c
• cram_huffman_decode_int() : cram_codecs.c
• cram_huffman_decode_int0() : cram_codecs.c
• cram_huffman_encode_char() : cram_codecs.c
• cram_huffman_encode_char0() : cram_codecs.c
• cram_huffman_encode_free() : cram_codecs.c
• cram_huffman_encode_init() : cram_codecs.c
• cram_huffman_encode_int() : cram_codecs.c
• cram_huffman_encode_int0() : cram_codecs.c
• cram_huffman_encode_store() : cram_codecs.c
• cram_index_build() : cram_index.c , cram_index.h
• cram_index_free() : cram_index.c , cram_index.h
• cram_index_load() : cram_index.c , cram_index.h
• cram_index_query() : cram_index.c , cram_index.h
• cram_load_reference() : cram_io.c , cram_io.h
• cram_new_block() : cram_io.c , cram_io.h
• cram_new_compression_header() : cram_io.h , cram_io.c
• cram_new_container() : cram_io.c , cram_io.h
• cram_new_metrics() : cram_io.h , cram_io.c
• cram_new_slice() : cram_io.c , cram_io.h
• cram_open() : cram_io.h , cram_io.c
• cram_put_bam_seq() : cram_encode.h , cram_encode.c
• cram_read_block() : cram_io.h , cram_io.c
• cram_read_container() : cram_io.c , cram_io.h
• cram_read_file_def() : cram_io.h , cram_io.c
• cram_read_SAM_hdr() : cram_io.h , cram_io.c
• cram_read_slice() : cram_io.h , cram_io.c
• cram_ref_decr() : cram_io.h , cram_io.c
• cram_ref_incr() : cram_io.h , cram_io.c
• cram_ref_load() : cram_io.c
• cram_seek() : cram_io.c , cram_io.h
• cram_seek_to_refpos() : cram_index.h , cram_index.c
• cram_set_header() : cram_io.c , cram_io.h
• cram_set_option() : cram_io.h , cram_io.c
• cram_set_voption() : cram_io.c , cram_io.h
• cram_stats_add() : cram_stats.c , cram_stats.h
• cram_stats_create() : cram_stats.c , cram_stats.h
• cram_stats_del() : cram_stats.c , cram_stats.h
• cram_stats_dump() : cram_stats.c , cram_stats.h
• cram_stats_encoding() : cram_stats.c , cram_stats.h
• cram_stats_free() : cram_stats.h , cram_stats.c
• cram_subexp_decode() : cram_codecs.c
• cram_subexp_decode_free() : cram_codecs.c
• cram_subexp_decode_init() : cram_codecs.c
• cram_uncompress_block() : cram_io.h , cram_io.c
• cram_write_block() : cram_io.c , cram_io.h
• cram_write_container() : cram_io.c , cram_io.h
• cram_write_file_def() : cram_io.h , cram_io.c
• cram_write_SAM_hdr() : cram_io.c , cram_io.h
• custom_free() : test-regidx.c
• custom_parse() : test-regidx.c