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Functions3,919 in github.com/bbuchfink/diamond

⨍ Functions 3,919◇ Types & classes 804

↓ 3 callersMethodgetTerminated

expected renewal length for weak ladder epochs

src/lib/alp/njn_localmaxstat.hpp:158

↓ 3 callersFunctionget_accession

src/util/sequence/sequence.cpp:76

↓ 3 callersFunctionget_ref_block_tmpfile_name

src/run/double_indexed.cpp:88

↓ 3 callersFunctiongetdelim_generic

src/util/io/decompressor.h:49

↓ 3 callersMethodgood

src/data/fasta/parser.h:57

↓ 3 callersFunctiongreedy_vertex_cover

src/tools/greedy_vertex_cover.cpp:121

↓ 3 callersMethodhas_ids

src/data/block/block.cpp:257

↓ 3 callersMethodhgap

src/dp/swipe/banded_3frame_swipe.cpp:64

↓ 3 callersFunctionhsum

src/util/simd/vector8_sse.h:128

↓ 3 callersFunctioninit_daa

src/legacy/daa/daa_write.cpp:29

↓ 3 callersMethodinit_read

src/data/fasta/fasta_file.cpp:386

↓ 3 callersFunctioninit_thresholds

src/cluster/helpers.cpp:152

↓ 3 callersFunctioninner_culling

src/align/culling.cpp:39

↓ 3 callersMethodinner_culling

src/align/culling.cpp:58

↓ 3 callersMethodinsert

src/lib/interval_tree/interval_tree.hpp:700

↓ 3 callersMethodinsert

src/util/data_structures/hash_set.h:126

↓ 3 callersMethodis_linear_round

src/cluster/multinode.h:125

↓ 3 callersFunctionis_sep_char

src/util/system/system.cpp:311

↓ 3 callersFunctionjoin_path

src/util/parallel/multiprocessing.cpp:75

↓ 3 callersMethodk

src/stats/score_matrix.h:159

↓ 3 callersMethodkey_end

src/cluster/radixed_table.h:36

↓ 3 callersMethodkill_upto_level

src/lib/alp/sls_alp.cpp:2106

↓ 3 callersMethodload_stats

src/data/block/block.h:108

↓ 3 callersFunctionlog10

src/lib/alp/njn_function.hpp:90

↓ 3 callersFunctionlog128_ps

src/stats/matrix_adjust/kernel_sse41.h:83

↓ 3 callersFunctionlog256_ps

src/stats/matrix_adjust/kernel_avx2.h:57

↓ 3 callersFunctionlog_ps

---- cephes-style log, 4 lanes ----------------------------------------------

src/stats/matrix_adjust/kernel_arm64.h:68

↓ 3 callersFunctionlog_sum

src/lib/alp/sls_pvalues.cpp:549

↓ 3 callersFunctionmake_flat_array

src/util/data_structures/flat_array.h:229

↓ 3 callersFunctionmake_profile8

src/dp/score_profile.cpp:99

↓ 3 callersMethodmake_temp_dir

src/cluster/multinode.h:155

↓ 3 callersMethodmask

src/dp/swipe/full_matrix.h:169

↓ 3 callersFunctionmatrix_adjust

src/tools/benchmark.cpp:491

↓ 3 callersFunctionmatrix_adjust_scalar

src/stats/matrix_adjust/matrix_adjust_scalar.cpp:131

↓ 3 callersMethodmax_len

src/dp/swipe/target_iterator.h:207

↓ 3 callersFunctionmerge_score

src/chaining/greedy_align.cpp:426

↓ 3 callersMethodmismatches

src/basic/match.h:402

↓ 3 callersFunctionnarrow_utf8

src/util/system/system.cpp:394

↓ 3 callersMethodoperator()

src/stats/score_matrix.h:108

↓ 3 callersFunctionoutput_range

src/align/culling.cpp:97

↓ 3 callersMethodoverlap

src/util/geo/interval.h:40

↓ 3 callersFunctionpower

src/util/math/integer.h:82

↓ 3 callersFunctionprint_escaped

src/util/escape_sequences.h:85

↓ 3 callersMethodprint_header

src/output/xml_format.cpp:102

↓ 3 callersMethodpush_back

src/dp/dp.h:230

↓ 3 callersMethodqcovhsp

src/basic/hssp.cpp:394

↓ 3 callersMethodquery_cover_percent

src/basic/match.h:213

↓ 3 callersFunctionquiet_nan

src/util/math/math.h:38

↓ 3 callersMethodreadFrom

* Reads a full block from input. */

src/lib/ips4o/buffers.hpp:82

↓ 3 callersFunctionread_mapping_table

src/cluster/multinode/output.cpp:100

↓ 3 callersMethodread_query_buffer

src/legacy/daa/daa_file.h:193

↓ 3 callersMethodread_to

src/util/io/file.h:83

↓ 3 callersFunctionrelApprox

src/lib/alp/njn_approx.hpp:72

↓ 3 callersMethodremove

src/cluster/volume.h:140

↓ 3 callersMethodreport_unaligned

src/output/output_format.h:140

↓ 3 callersMethodreset

src/dp/swipe/config.h:68

↓ 3 callersMethodrewind

src/data/blastdb/pin.cpp:197

↓ 3 callersMethodrewind

src/util/io/file.cpp:277

↓ 3 callersFunctionrstrip

src/util/string/string.h:37

↓ 3 callersFunctionrun

src/run/double_indexed.cpp:787

↓ 3 callersMethodrun

src/contrib/mcl/mcl.cpp:239

↓ 3 callersFunctions_NCBISM_StartsWith

src/lib/blast/blastn_score.cpp:861

↓ 3 callersFunctionscheduled_thread_pool_auto

src/util/parallel/thread_pool.h:51

↓ 3 callersMethodscore

src/contrib/dna/extension.h:52

↓ 3 callersMethodscore

src/dp/swipe/banded_3frame_swipe.cpp:172

↓ 3 callersMethodscore_width

src/stats/cbs.cpp:90

↓ 3 callersFunctionseed_partition_offset

src/basic/seed.h:48

↓ 3 callersFunctionseedp_count

src/basic/seed.h:39

↓ 3 callersMethodseq_ptr

src/search/seed_array/seed_iterator.h:192

↓ 3 callersMethodsequence

src/data/blastdb/psq.cpp:63

↓ 3 callersMethodset

* Sets write/read pointers. */

src/lib/ips4o/bucket_pointers.hpp:71

↓ 3 callersMethodsetMaxValues

src/contrib/dna/alignment.h:69

↓ 3 callersMethodset_db_letters

src/stats/score_matrix.h:192

↓ 3 callersMethodset_hgap

src/dp/swipe/banded_3frame_swipe.cpp:68

↓ 3 callersMethodset_hgap

src/dp/swipe/full_matrix.h:47

↓ 3 callersMethodset_score

src/dp/swipe/banded_3frame_swipe.cpp:72

↓ 3 callersMethodset_seed_reduced

src/basic/shape.h:114

↓ 3 callersMethodsimulate_alp_upto_the_given_number

src/lib/alp/sls_alp.cpp:2339

↓ 3 callersMethodsize

src/util/data_structures/bit_vector.h:113

↓ 3 callersMethodsparse_records

src/cluster/volume.h:112

↓ 3 callersMethodstore

src/dp/score_vector_int16.h:139

↓ 3 callersMethodstore

src/util/simd/vector_generic.h:70

↓ 3 callersMethodsubject_cover_percent

src/basic/match.h:218

↓ 3 callersFunctionswipe_bin

src/dp/swipe/swipe_wrapper.cpp:317

↓ 3 callersMethodtaxon_scientific_name

src/legacy/dmnd/dmnd.cpp:606

↓ 3 callersMethodtell_seq

src/legacy/dmnd/dmnd.cpp:372

↓ 3 callersFunctionto_bits

src/util/math/math.h:32

↓ 3 callersFunctionto_string

src/legacy/dmnd/dmnd.cpp:487

↓ 3 callersFunctiontokenize

src/util/string/string.cpp:119

↓ 3 callersMethodtraceback

src/dp/swipe/banded_matrix.h:276

↓ 3 callersMethodtranspose

src/util/geo/diagonal_segment.h:104

↓ 3 callersMethodupdate

src/lib/alp/njn_dynprogprob.cpp:189

↓ 3 callersFunctionverify_hits

src/search/left_most.h:50

↓ 3 callersMethodwalk_diagonal

src/dp/swipe/banded_matrix.h:210

↓ 3 callersMethodwalk_gap

src/dp/swipe/banded_matrix.h:217

↓ 3 callersMethodwrite

src/util/parallel/filestack.cpp:183

↓ 2 callersFunctionBlastMemDup

src/lib/blast/ncbi_std.cpp:35

↓ 2 callersFunctionBlastScoreBlkFree

src/lib/blast/blastn_score.cpp:1177

↓ 2 callersFunctionBlastSeqLocAppend

src/lib/blast/blast_filter.cpp:64

↓ 2 callersFunctionBlastSeqLocNodeFree

src/lib/blast/blast_filter.cpp:169

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