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Functions263 in github.com/bwa-mem2/bwa-mem2

⨍ Functions 263◇ Types & classes 31

Functionerr_xreopen_core

src/utils.cpp:67

Functionerr_xzopen_core

src/utils.cpp:75

src/FMI_search.cpp:815

MethodgetScores16

src/bandedSWA.cpp:1117

MethodgetScores8

src/bandedSWA.cpp:412

src/bandedSWA.cpp:102

Methodget_sa_entry

src/FMI_search.cpp:1054

Methodget_sa_entry_compressed

src/FMI_search.cpp:1103

src/read_index_ele.cpp:40

src/kstring.h:109

Functionksw_align2_orig_bak

src/ksw.cpp:383

Functionksw_extend

src/ksw.cpp:535

Functionksw_global

src/ksw.cpp:670

Functionksw_i16

src/ksw.cpp:234

Methodksw_qinit

* Initialize the query data structure * * @param size Number of bytes used to store a score; valid valures are 1 or 2 * @param qlen Length of t

src/kswv.cpp:1256

src/ksw.cpp:111

src/kswv.cpp:114

Methodkswv512_16

src/kswv.cpp:933

MethodkswvBatchWrapper16

src/kswv.cpp:725

MethodkswvBatchWrapper8

src/kswv.cpp:177

MethodkswvScalar_i16

src/kswv.cpp:1434

MethodkswvScalar_u8

src/kswv.cpp:1306

Functionktf_worker

Current working code *********/

src/kthread.cpp:53

Functionktp_worker

src/fastmap.cpp:327

test/sa2ref_test.cpp:68

test/fmi_test.cpp:46

test/main_banded.cpp:185

test/smem2_test.cpp:83

test/bwt_seed_strategy_test.cpp:45

src/ksw.cpp:706

src/kopen.cpp:401

src/runsimd.cpp:176

src/kstring.cpp:55

src/kswv.cpp:1751

src/main.cpp:53

Functionmem_align1

src/bwamem_extra.cpp:107

Functionmem_print_chain

src/bwamem.cpp:450

src/FMI_search.cpp:83

Methodpac_seq_len

src/FMI_search.cpp:70

Functionsaisxx_bwt

MethodscalarBandedSWA

src/bandedSWA.cpp:116

Functionsmem_aux_destroy

src/bwamem.cpp:93

Functionsmem_aux_init

------------------------------------------------------------------ SMEMs

src/bwamem.cpp:80

Functionsmem_config

src/bwamem_extra.cpp:83

Functionsmem_itr_destroy

src/bwamem_extra.cpp:67

Functionsmem_itr_init

src/bwamem_extra.cpp:52

Functionsmem_next

src/bwamem_extra.cpp:90

Functionsmem_set_query

src/bwamem_extra.cpp:76

MethodsmithWaterman128_16

src/bandedSWA.cpp:3757

MethodsmithWaterman128_8

src/bandedSWA.cpp:4485

MethodsmithWaterman256_16

src/bandedSWA.cpp:1412

MethodsmithWaterman256_8

src/bandedSWA.cpp:713

MethodsmithWaterman512_16

src/bandedSWA.cpp:2962

MethodsmithWaterman512_8

src/bandedSWA.cpp:2263

MethodsmithWatermanBatchWrapper16

src/bandedSWA.cpp:1143

MethodsmithWatermanBatchWrapper8

src/bandedSWA.cpp:436

Functionworker_aln

src/bwamem.cpp:1175

Functionworker_bwt

Kernel, called by threads */

src/bwamem.cpp:1193

Functionworker_sam

src/bwamem.cpp:1245

Method~BandedPairWiseSW

src/bandedSWA.cpp:97

Method~FMI_search

src/FMI_search.cpp:58

Method~indexEle

src/read_index_ele.cpp:46

src/kswv.cpp:157

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