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Functions3,192 in github.com/chhylp123/hifiasm

⨍ Functions 3,192◇ Types & classes 18
↓ 289 callersFunctionget_real_length
Overlaps.h:700
↓ 188 callersFunctionasg_cleanup
Overlaps.cpp:956
↓ 141 callersFunctionkv_push
Overlaps.cpp:1964
↓ 139 callersFunctionget_bubbles
hic.cpp:2217
↓ 136 callersFunctionkt_for
kthread.cpp:55
↓ 128 callersFunctionyak_realtime
sys.cpp:29
↓ 120 callersFunctionget_R_to_U
Overlaps.cpp:33066
↓ 119 callersFunctionasg_arc_del
set asg_arc_t::del for v->w
Overlaps.h:478
↓ 106 callersFunctionGet_T
CommandLines.cpp:88
↓ 106 callersFunctionasg_arc_pushp
append an arc
Overlaps.h:468
↓ 98 callersFunctionma_ug_destroy
Overlaps.cpp:858
↓ 89 callersFunctionma_hit2arc
in default, max_hang = 1000, int_frac = 0.8, min_ovlp = 50
Overlaps.h:366
↓ 87 callersFunctionkv_resize
inter.cpp:14090
↓ 86 callersFunctionKRADIX_SORT_INIT
htab.cpp:301
↓ 83 callersFunctionget_offset_adjust
Overlaps.h:1169
↓ 79 callersFunctionasg_symm
Overlaps.cpp:1029
↓ 78 callersFunctionget_unitig
Overlaps.h:742
↓ 69 callersFunctionkv_push
hic.cpp:3389
↓ 65 callersFunctionkfree
kalloc.cpp:79
↓ 56 callersFunctionasg_seq_del
set asg_arc_t::del and asg_seq_t::del to 1 for sequence s and all its associated arcs
Overlaps.h:487
↓ 56 callersFunctionget_arcs
gfa_ut.cpp:463
↓ 51 callersFunctionrecover_UC_Read
Process_Read.cpp:716
↓ 49 callersFunctionkv_push
inter.cpp:20622
↓ 47 callersFunctiongen_spec_edge
gfa_ut.cpp:2834
↓ 46 callersFunctionasg_bub_pop1_primary_trio
Overlaps.cpp:25795
↓ 46 callersFunctionasg_is_single_edge
Overlaps.cpp:2801
↓ 44 callersFunctionget_edge_from_source
Overlaps.cpp:33629
↓ 40 callersFunctionget_win_id_by_s
[w_s, w_e]
Correct.h:1306
↓ 39 callersFunctionasg_destroy
Overlaps.cpp:763
↓ 39 callersFunctionrecover_UC_Read_sub_region
Process_Read.cpp:524
↓ 38 callersFunctioninfer_rovlp
Correct.cpp:19083
↓ 37 callersFunctionasg_seq_set
Overlaps.cpp:898
↓ 37 callersFunctioninit_UC_Read
Process_Read.cpp:499
↓ 35 callersFunctiondestory_UC_Read
Process_Read.cpp:473
↓ 34 callersFunctionkv_push
Correct.cpp:9611
↓ 32 callersFunctionasg_append_edges_to_srt
Overlaps.cpp:27790
↓ 32 callersFunctionasg_topocut_aux
to see if it is a long tip
Overlaps.cpp:6557
↓ 32 callersFunctionresize_UC_Read
Correct.h:1341
↓ 30 callersFunctionma_ug_gen
Overlaps.cpp:8741
↓ 30 callersFunctionset_b_utg_weight_flag_xor
hic.cpp:8993
↓ 29 callersFunctionadd_fake_cigar
Hash_Table.cpp:1295
↓ 29 callersFunctionget_specific_overlap
Overlaps.cpp:1075
↓ 29 callersFunctionpop_trace_bp_f
Levenshtein_distance.h:674
↓ 29 callersFunctionpush_alnw
Correct.cpp:15988
↓ 29 callersFunctionpush_trace_bp_f
Levenshtein_distance.h:640
↓ 28 callersFunctionget_hc_edge
hic.cpp:6744
↓ 27 callersFunctionasg_init
Overlaps.cpp:758
↓ 27 callersFunctionget_fake_gap_shift
Hash_Table.cpp:69
↓ 27 callersFunctionpush_trace
Levenshtein_distance.h:522
↓ 26 callersFunctionget_fake_gap_pos
Hash_Table.cpp:64
↓ 26 callersFunctionkt_u_trans_t_idx
Overlaps.cpp:16983
↓ 25 callersFunctionresize_Chain_Data
Hash_Table.cpp:1220
↓ 24 callersFunctionclear_RSet
POA.h:154
↓ 24 callersFunctioncopy_untig_graph
Overlaps.cpp:19494
↓ 24 callersFunctionget_ul_path_info
gfa_ut.cpp:9004
↓ 24 callersFunctionkv_push
gfa_ut.cpp:891
↓ 24 callersFunctionset_R_to_U
Overlaps.cpp:33050
↓ 24 callersFunctionset_rtg_flag_by_bubble
Overlaps.cpp:35321
↓ 23 callersFunctioninit_Window_Pool
Correct.h:59
↓ 23 callersFunctionsimi_pass
Correct.cpp:3668
↓ 23 callersFunctionug_occ_w
gfa_ut.cpp:4099
↓ 22 callersFunctioncal_s_interval
inter.cpp:11162
↓ 22 callersFunctionfill_subregion
Correct.cpp:270
↓ 22 callersFunctionget_ul_ovlp
gfa_ut.cpp:6579
↓ 22 callersFunctionpush_hc_edge
hic.cpp:3256
↓ 22 callersFunctionyak_hash64_64
htab.h:150
↓ 21 callersFunctionrecover_UC_Read_RC
Process_Read.cpp:744
↓ 20 callersFunctiondetermine_overlap_region
Correct.cpp:287
↓ 20 callersFunctionget_r_offset
inter.cpp:4501
↓ 20 callersFunctionha_opt_update_cov
CommandLines.cpp:411
↓ 20 callersFunctionretrieve_u_seq
Process_Read.cpp:1727
↓ 20 callersFunctionscale_ed_thre
Correct.cpp:14354
↓ 20 callersFunctionset_reverse_overlap
Overlaps.cpp:1093
↓ 20 callersFunctionyak_cpu_usage
sys.cpp:56
↓ 19 callersFunction__ac_Wang_hash
khash.h:406
↓ 19 callersFunctionha_ovec_destroy
Assembly.cpp:486
↓ 19 callersFunctionpop_sc
inter.cpp:3704
↓ 19 callersFunctionrenew_utg
Overlaps.cpp:18140
↓ 19 callersFunctiony_start_offset
Hash_Table.h:165
↓ 18 callersFunctionadd_cigar_record
type: 0. match 1. mismatch 2. insertion 3. deletion ***/
Correct.h:1180
↓ 18 callersFunctionasg_seq_drop
Overlaps.h:502
↓ 18 callersFunctionclear_window_list_alloc
Hash_Table.cpp:1352
↓ 18 callersFunctionget_tip_trio_infor
Overlaps.cpp:6890
↓ 18 callersFunctionma_ug_gen_primary
Overlaps.cpp:9100
↓ 18 callersFunctionpop_trace
Levenshtein_distance.h:533
↓ 17 callersFunctionReserve_Banded_BPM
pattern is the longer one, while text is the shorter one **/
Levenshtein_distance.h:3857
↓ 17 callersFunctionclear_Cigar_record
Correct.cpp:11209
↓ 17 callersFunctioninit_aux_table
Process_Read.cpp:478
↓ 17 callersFunctionrd_hm_bub
Overlaps.cpp:25087
↓ 16 callersFunctionReserve_Banded_BPM_PATH
p_length might be samller than t_length + 2 * errthold
Levenshtein_distance.h:4096
↓ 16 callersFunctionappend_window_list
Hash_Table.cpp:1152
↓ 16 callersFunctionget_utg_end_from_btg
hic.cpp:8367
↓ 16 callersFunctionha_ovec_init
Assembly.cpp:455
↓ 16 callersFunctioninit_waln
Correct.cpp:764
↓ 16 callersFunctionma_ug_print_simple
Overlaps.cpp:11375
↓ 16 callersFunctionma_ug_seq
generate unitig sequences
Overlaps.cpp:10476
↓ 16 callersFunctionmax_ovlp
inter.cpp:1494
↓ 15 callersFunctionasg_arc_identify_simple_bubbles_multi
Overlaps.cpp:4690
↓ 15 callersFunctionclear_Candidates_list
Hash_Table.cpp:1251
↓ 15 callersFunctioncopy_read_graph
Overlaps.cpp:19544
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