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Functions3,192 in github.com/chhylp123/hifiasm

⨍ Functions 3,192◇ Types & classes 18
↓ 3 callersFunctioniter_cc_idx_t
ecovlp.cpp:1055
↓ 3 callersFunctioniter_hpc
Correct.cpp:12305
↓ 3 callersFunctionkm_init2
kalloc.cpp:38
↓ 3 callersFunctionkr_drand_node_ref
rcut.cpp:3984
↓ 3 callersFunctionks_shuffle_uint32_t
rcut.cpp:742
↓ 3 callersFunctionksw_backtrack
In the backtrack matrix, value p[] has the following structure: bit 0-2: which type gets the max - 0 for H, 1 for E, 2 for F, 3 for \tilde{E} and 4 fo
ksw2.h:120
↓ 3 callersFunctionl2g_res_chain
inter.cpp:4541
↓ 3 callersFunctionlabel_unitigs_sm
hic.cpp:14957
↓ 3 callersFunctionlable_large_indels
Correct.cpp:8093
↓ 3 callersFunctionload_All_reads
Process_Read.cpp:127
↓ 3 callersFunctionload_all_data_from_disk
Overlaps.cpp:23590
↓ 3 callersFunctionload_asg_t
rcut.cpp:4733
↓ 3 callersFunctionload_hc_pt_index
hic.cpp:537
↓ 3 callersFunctionload_ma_ug_t
rcut.cpp:4760
↓ 3 callersFunctionma_ug_gen_phase
Overlaps.cpp:8870
↓ 3 callersFunctionmarkSNP_detail
mark SNPs at [xBeg, xEnd], note we need to deal with flag_offset carefully
Correct.cpp:6421
↓ 3 callersFunctionmax_ovlp_src_contain
inter.cpp:7859
↓ 3 callersFunctionmb_flip_spin
k is uid
rcut.cpp:1643
↓ 3 callersFunctionmb_score
rcut.cpp:1461
↓ 3 callersFunctionmc_clus_cc
rcut.cpp:2713
↓ 3 callersFunctionmc_edges_symm
rcut.cpp:772
↓ 3 callersFunctionmc_init_spin
rcut.cpp:1537
↓ 3 callersFunctionmc_opt_init
rcut.cpp:144
↓ 3 callersFunctionmc_solve_general
rcut.cpp:4586
↓ 3 callersFunctionmc_svaux_destroy
rcut.cpp:1336
↓ 3 callersFunctionmc_svaux_init
rcut.cpp:1311
↓ 3 callersFunctionmcgg_set_spin
k is uid
rcut.cpp:4156
↓ 3 callersFunctionmerge_hybrid_utg_content
gfa_ut.cpp:16054
↓ 3 callersFunctionmerge_snp_vectors_and_test
Correct.cpp:7588
↓ 3 callersFunctionnext_uid
rcut.cpp:1883
↓ 3 callersFunctionosg_init
horder.cpp:2411
↓ 3 callersFunctionosg_seq_set
horder.cpp:2423
↓ 3 callersFunctionoutput_contig_graph_alternative
Overlaps.cpp:32699
↓ 3 callersFunctionpoa_g_arc_w
gfa_ut.cpp:6327
↓ 3 callersFunctionpolish_unitig
Overlaps.cpp:9809
↓ 3 callersFunctionpolish_unitig_advance
Overlaps.cpp:10302
↓ 3 callersFunctionpop_pdq
hic.cpp:3450
↓ 3 callersFunctionprint_het_cnt_log
Assembly.cpp:968
↓ 3 callersFunctionprint_scaffold
horder.cpp:3802
↓ 3 callersFunctionproduce_u_cov
Process_Read.cpp:1907
↓ 3 callersFunctionpurge_dups
Purge_Dups.cpp:5527
↓ 3 callersFunctionpush_adp_k_hits
Correct.cpp:14758
↓ 3 callersFunctionpush_cigar_cell
Correct.h:1297
↓ 3 callersFunctionpush_emask_lst
inter.cpp:12189
↓ 3 callersFunctionpush_nec_re
ecovlp.cpp:2426
↓ 3 callersFunctionpush_usg_t_node
gfa_ut.cpp:10507
↓ 3 callersFunctionreassign_gaps
Correct.cpp:25409
↓ 3 callersFunctionrechain_aln
Correct.cpp:17145
↓ 3 callersFunctionremove_overlaps
Overlaps.cpp:802
↓ 3 callersFunctionrenew_scaffold
horder.cpp:3790
↓ 3 callersFunctionreorder_bub
rcut.cpp:2244
↓ 3 callersFunctionrescue_contained_reads_aggressive
chainLenThres is used to avoid circle
Overlaps.cpp:34756
↓ 3 callersFunctionrescue_missing_overlaps_aggressive
Overlaps.cpp:35106
↓ 3 callersFunctionreset_min_cut_t
hic.cpp:5639
↓ 3 callersFunctionreset_scaf_node_uinfo_srt_t
gfa_ut.cpp:14542
↓ 3 callersFunctionreset_u_trans_hit_idx
Overlaps.cpp:13226
↓ 3 callersFunctionresolve_tangles
Overlaps.cpp:30489
↓ 3 callersFunctionresolve_tangles_hic
hic.cpp:16259
↓ 3 callersFunctiontraceback_sc
ai is the suffix of aj
Correct.cpp:13613
↓ 3 callersFunctiontrans_base_infer
inter.cpp:22574
↓ 3 callersFunctiontrim_hpc
Correct.cpp:13570
↓ 3 callersFunctionug_ext_free
gfa_ut.cpp:14368
↓ 3 callersFunctionug_map_lchain_simple
anchor.cpp:3621
↓ 3 callersFunctionuidx_load
htab.cpp:1603
↓ 3 callersFunctionuidx_write
htab.cpp:1558
↓ 3 callersFunctionul_contain_gen
inter.cpp:20717
↓ 3 callersFunctionulg_arc_cut_supports
gfa_ut.cpp:9757
↓ 3 callersFunctionulg_arc_cut_tips
gfa_ut.cpp:8673
↓ 3 callersFunctionunitig_arc_del_short_diploid_by_length
Overlaps.cpp:6822
↓ 3 callersFunctionupdate_bubble_chain
hic.cpp:8736
↓ 3 callersFunctionupdate_qtn
gfa_ut.cpp:17060
↓ 3 callersFunctionupdate_semi_coord
[qs, qe)
Correct.cpp:14364
↓ 3 callersFunctionupdate_ug_arch_ul_mul
inter.cpp:19645
↓ 3 callersFunctionupdate_ul_vec_t_ug
inter.cpp:4974
↓ 3 callersFunctionupdate_unitig_graph
Overlaps.cpp:20162
↓ 3 callersFunctionverify_single_window
Correct.cpp:328
↓ 3 callersFunctionwrite_hc_pt_index
hic.cpp:498
↓ 3 callersFunctionwrite_trans_chain
Overlaps.cpp:14233
↓ 3 callersFunctionyak_hash_long
htab.h:162
↓ 3 callersFunctionyak_realtime_core
sys.cpp:16
↓ 2 callersFunctionKRADIX_SORT_INIT
tovlp.cpp:1475
↓ 2 callersFunctionLCA_distance
hic.cpp:3710
↓ 2 callersFunctionOutput_PAF0
Assembly.cpp:1720
↓ 2 callersFunctionOutput_corrected_fastq
Assembly.cpp:907
↓ 2 callersFunctionPrint_H
CommandLines.cpp:95
↓ 2 callersFunctionPush_Node
POA.h:225
↓ 2 callersFunctionReserve_Banded_BPM_4_SSE_only
/four patterns have the same p_length
Levenshtein_distance.h:4477
↓ 2 callersFunctionReserve_Banded_BPM_Extension_REV
Levenshtein_distance.h:216
↓ 2 callersFunctionRsetInitHaplotypeEvdienceFlag
Correct.h:1043
↓ 2 callersFunctionaddSNPtohaplotype_advance
Correct.cpp:6740
↓ 2 callersFunctionaddUnmatchedSeqToGraph
POA.cpp:269
↓ 2 callersFunctionadd_overlaps_from_different_sources
Overlaps.cpp:823
↓ 2 callersFunctionadd_path_to_correct_read_new
return the ID of next node at backbone
Correct.cpp:4632
↓ 2 callersFunctionadd_segment_to_correct_read
Correct.cpp:4545
↓ 2 callersFunctionaddmatchedSeqToGraph
POA.cpp:309
↓ 2 callersFunctionadj_m_peak_hom
hist.cpp:46
↓ 2 callersFunctionadjust_utg_chain_qoffset
inter.cpp:4749
↓ 2 callersFunctionajust_end_cigar
Correct.cpp:25271
↓ 2 callersFunctionalign_hc_ed_post_extz
Correct.cpp:12951
↓ 2 callersFunctionalignment_extension
Levenshtein_distance.h:374
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