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Functions622 in github.com/BGI-Qingdao/TGS-GapCloser

⨍ Functions 622◇ Types & classes 211
↓ 175 callersMethodsize
algorithm/incr_array/incr_array.h:162
↓ 110 callersMethodend
algorithm/incr_array/incr_array.h:125
↓ 91 callersMethodpush_back
algorithm/incr_array/incr_array.h:71
↓ 66 callersMethodbegin
algorithm/incr_array/incr_array.h:119
↓ 57 callersMethodclear
algorithm/incr_array/incr_array.h:144
↓ 50 callersMethodTouch
common/freq/freq.h:12
↓ 48 callersMethodempty
algorithm/incr_array/incr_array.h:142
↓ 38 callersMethodto_string
common/time/timetools.cpp:31
↓ 34 callersMethodeof
biocommon/pair/pair_sam_parser.h:26
↓ 31 callersMethodIsContain
algorithm/interval/Interval.h:130
↓ 29 callersMethodToString
common/freq/freq.h:20
↓ 26 callersMethodto_int
common/args/argsparser.h:165
↓ 23 callersFunctionsplit
common/string/stringtools.cpp:14
↓ 22 callersMethodPop
appcommon/SubSets.h:21
↓ 20 callersMethodLen
biocommon/seq/seq.h:21
↓ 17 callersMethodclose
common/files/gzstream.cpp:74
↓ 16 callersMethodAddEdgeValue
algorithm/graph/GraphTrunk_test.cpp:25
↓ 15 callersMethodAddEdge
algorithm/graph/GraphTest.cpp:154
↓ 14 callersMethodAddEdgeValue
algorithm/graph/GraphTipRemove_test.cpp:15
↓ 14 callersMethodAddEdgeValue
algorithm/graph/MinTree_test.cpp:34
↓ 14 callersMethodGet
the row & coloumn are all 0 base
algorithm/align/ScoreMatrix.h:40
↓ 14 callersMethodIDY
biocommon/paf/PAF.h:36
↓ 14 callersMethodopen
common/files/gzstream.cpp:51
↓ 13 callersMethodInsert
algorithm/fibheap/fib_heap.h:78
↓ 11 callersMethodIncreaseElement
algorithm/collection/collection.h:38
↓ 11 callersMethodOppoNode
algorithm/graph/GraphBasic.h:39
↓ 10 callersMethodCount
algorithm/distribution/distribution.h:137
↓ 9 callersMethodadd_edge
algorithm/graph/SPFSearch_test.cpp:70
↓ 9 callersMethodto_float
common/args/argsparser.h:169
↓ 8 callersMethodAddPartSeq
biocommon/seq/seq.h:29
↓ 8 callersMethodHasContig
orientation_correct/ScaffInfo.h:56
↓ 8 callersMethodLoadNextFasta
biocommon/fasta/fasta.h:181
↓ 8 callersMethodOverlap
algorithm/interval/Interval.h:166
↓ 8 callersMethodPush
appcommon/SubSets.h:10
↓ 8 callersMethodadd_edge
algorithm/graph/GraphTest.cpp:77
↓ 7 callersMethodHasNode
algorithm/graph/GraphBasic.h:203
↓ 7 callersMethodLoadAllScaff
appcommon/ScaffInfo.cpp:98
↓ 7 callersMethodPrintAsDOT
algorithm/graph/GraphBasic.h:275
↓ 7 callersMethodSeq
biocommon/seq/seq.cpp:27
↓ 7 callersMethodget
common/log/logfilter.cpp:18
↓ 7 callersFunctionseqCompleteReverse
biocommon/seq/tool_func.h:29
↓ 6 callersMethodAlignedElementsQuery
algorithm/align/SmithWaterman.h:105
↓ 6 callersMethodFlatten
biocommon/paf/PAF.cpp:32
↓ 6 callersMethodGetPercent
algorithm/distribution/distribution.h:16
↓ 6 callersMethodGetResult
algorithm/align/SmithWaterman.h:121
↓ 6 callersMethodInitFromPAF
appcommon/contigPairInfo.cpp:30
↓ 6 callersMethodPrintAllScaff
appcommon/ScaffInfo.cpp:90
↓ 6 callersMethodSet
algorithm/align/ScoreMatrix.h:45
↓ 6 callersMethodadd_node
algorithm/graph/GraphTest.cpp:85
↓ 6 callersMethodadd_node
algorithm/graph/SPFSearch_test.cpp:78
↓ 6 callersMethodsize
algorithm/collection/collection.h:70
↓ 5 callersMethodAddSeq
biocommon/fastq/fastq.h:130
↓ 5 callersMethodDeleteMe
algorithm/bi_list/bi_list.h:51
↓ 5 callersMethodEmpty
algorithm/fibheap/fib_heap.h:195
↓ 5 callersFunctionInitC1
algorithm/collection/collection_test.cpp:8
↓ 5 callersMethodParseAsMatchData
biocommon/sam_bam/sam_parser.cpp:294
↓ 5 callersMethodPopEdge
algorithm/graph/GraphTest.cpp:158
↓ 5 callersMethodis_open
common/files/gzstream.h:71
↓ 5 callersMethodkeysize
algorithm/collection/collection.h:80
↓ 5 callersMethodresize
algorithm/incr_array/incr_array.h:166
↓ 4 callersMethodAddJob
common/multithread/MultiThread.h:76
↓ 4 callersMethodAddNode
algorithm/graph/GraphTest.cpp:151
↓ 4 callersMethodAlignedElementsRef
algorithm/align/SmithWaterman.h:89
↓ 4 callersMethodBackword
algorithm/bi_list/bi_list.h:76
↓ 4 callersMethodCheckEdge
algorithm/graph/GraphBasic.h:249
↓ 4 callersMethodCheckLoadedData
algorithm/align/SmithWaterman.h:29
↓ 4 callersMethodColumn
algorithm/align/ScoreMatrix.h:35
↓ 4 callersMethodDoDepthSearch
do depth search. 1. stop go deeper if ender say yes. 2. avoid to use recursion because the depth may very large. @params start : id of root node step
algorithm/graph/DepthSearch.h:147
↓ 4 callersMethodEdgeNum
algorithm/graph/GraphBasic.h:137
↓ 4 callersMethodFillMutrix
algorithm/align/SmithWaterman.h:52
↓ 4 callersMethodFormatAllIndex
orientation_correct/ScaffInfo.h:61
↓ 4 callersMethodForward
algorithm/bi_list/bi_list.h:71
↓ 4 callersMethodHasEdge
algorithm/graph/GraphBasic.h:132
↓ 4 callersMethodInitAfterDataLoaded
algorithm/align/SmithWaterman.h:40
↓ 4 callersFunctionInitC2
algorithm/collection/collection_test.cpp:19
↓ 4 callersMethodInitFromScaffInfo
appcommon/contigPairInfo.h:46
↓ 4 callersMethodInitFromStr
biocommon/sam_bam/sam_parser.cpp:9
↓ 4 callersMethodInitFromString
15 4432 0 259 + 9125 13577 9 273 242 266 0 tp:A:S mm:i:15 gn:i:9 go:i:2 cg:Z:136M7D13M2I108M
biocommon/paf/PAF.cpp:7
↓ 4 callersMethodInsert
first assume this as the root of bi-list , assume left is the forward order , so that the right node of this is the end of bi-list , second always i
algorithm/bi_list/bi_list.h:35
↓ 4 callersMethodIsEnd
algorithm/graph/GraphTest.cpp:161
↓ 4 callersMethodIs_Setted
biocommon/fasta/fasta.h:136
↓ 4 callersMethodLoadAllScaff
orientation_correct/ScaffInfo.cpp:70
↓ 4 callersMethodPopNode
algorithm/graph/GraphTest.cpp:159
↓ 4 callersMethodPrintAllScaff
orientation_correct/ScaffInfo.cpp:62
↓ 4 callersMethodReset
biocommon/fastq/fastq.h:108
↓ 4 callersMethodReset
biocommon/fasta/fasta.h:110
↓ 4 callersMethodRow
algorithm/align/ScoreMatrix.h:34
↓ 4 callersMethodSingle
algorithm/bi_list/bi_list.h:66
↓ 4 callersMethodToString
algorithm/distribution/distribution.h:28
↓ 4 callersMethodto_bool
common/args/argsparser.h:163
↓ 3 callersMethodAddEdge
DO NOT use this if your TEdge has more member variable.
algorithm/graph/GraphBasic.h:309
↓ 3 callersMethodAddHead
biocommon/fastq/fastq.h:123
↓ 3 callersMethodAddHead
biocommon/fasta/fasta.h:120
↓ 3 callersMethodDecreaseKey
algorithm/fibheap/fib_heap.h:141
↓ 3 callersMethodHead
biocommon/fastq/fastq.cpp:50
↓ 3 callersMethodInit
main_src_tool/FakeRef2Scaff.cpp:43
↓ 3 callersMethodInit
main_src_tool/Ref2Gap.cpp:63
↓ 3 callersMethodIs_Setted
biocommon/fastq/fastq.h:162
↓ 3 callersMethodLoadAllFasta
biocommon/fasta/fasta.h:153
↓ 3 callersMethodLoadNextFastq
biocommon/fastq/fastq.h:234
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