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Functions261 in github.com/abyzovlab/CNVnator

⨍ Functions 261◇ Types & classes 14
↓ 29 callersMethodwriteHistogramsToBinDir
IO.cpp:366
↓ 19 callersMethodgetSignal
IO.cpp:332
↓ 16 callersMethodnewDistributionTH1
IO.hh:69
↓ 8 callersMethodchromLen
Genome.hh:36
↓ 8 callersMethodsetDataDir
HisMaker.hh:119
↓ 7 callersMethodend1
Interval.hh:29
↓ 7 callersMethodlenChromWithTree
IO.cpp:287
↓ 7 callersMethodnewSignalTH1
IO.cpp:350
↓ 7 callersFunctionnormalize
HisMaker.cpp:32
↓ 7 callersMethodsignalName
IO.cpp:81
↓ 6 callersFunctionfindIndex
HisMaker.cpp:4393
↓ 6 callersMethodgetDistrName
HisMaker.cpp:5723
↓ 6 callersFunctiongetRMS
EXOnator.cpp:229
↓ 6 callersMethodnext
Interval.hh:36
↓ 6 callersMethodparseRecord
Interval.cpp:36
↓ 6 callersFunctionpvalue
(i)
callbaf.py:72
↓ 5 callersMethodgetChromosome
VcfParser.hh:46
↓ 5 callersMethodgetChromosomeIndex
Genome.cpp:128
↓ 5 callersMethodgetHistogram
HisMaker.cpp:127
↓ 5 callersMethodnumChrom
Genome.hh:34
↓ 5 callersMethodstart1
Interval.hh:28
↓ 4 callersMethodgetMeanSigma
HisMaker.cpp:1574
↓ 4 callersFunctiongetMedian
EXOnator.cpp:292
↓ 4 callersMethodgetName
FastaParser.hh:28
↓ 4 callersMethodisNextReversed
AliParser.hh:72
↓ 4 callersMethodisReversed
AliParser.hh:71
↓ 4 callersMethodname
Genome.hh:33
↓ 3 callersMethoddistributionName
IO.hh:46
↓ 3 callersMethodgetChromNamesWithTree
HisMaker.cpp:4293
↓ 3 callersMethodgetDistribution
IO.hh:62
↓ 3 callersFunctiongetIndexForName
HisMaker.cpp:3241
↓ 3 callersMethodgetQuality
AliParser.hh:63
↓ 3 callersMethodgetTree
IO.cpp:328
↓ 3 callersMethodisUnmapped
AliParser.hh:69
↓ 3 callersMethodpartition
HisMaker.cpp:1803
↓ 3 callersMethodscrollTo
AliParser.cpp:185
↓ 2 callersMethodchromName
Genome.hh:35
↓ 2 callersFunctioncountReads
HisMaker.cpp:3248
↓ 2 callersMethodgetAlt
VcfParser.hh:51
↓ 2 callersMethodgetData
returuns the name of current chromosome
FastaParser.hh:29
↓ 2 callersMethodgetDirName
IO.cpp:322
↓ 2 callersMethodgetEnd
AliParser.hh:48
↓ 2 callersMethodgetEquivalent
Interval.cpp:53
↓ 2 callersMethodgetFilter
VcfParser.hh:55
↓ 2 callersMethodgetFragmentLength
AliParser.hh:58
↓ 2 callersFunctiongetKolmogorovProb1
EXOnator.cpp:272
↓ 2 callersMethodgetPosition
VcfParser.hh:48
↓ 2 callersMethodgetQueryName
AliParser.hh:98
↓ 2 callersMethodgetReadLength
AliParser.hh:53
↓ 2 callersMethodgetRef
VcfParser.hh:50
↓ 2 callersMethodgetSignalName
HisMaker.cpp:5750
↓ 2 callersMethodgetStart
AliParser.hh:43
↓ 2 callersMethodget_chrom_names_with_tree
(self,snp=False)
pytools/io.py:103
↓ 2 callersMethodget_signal
Returns 1D histogram: (Xbin_centers, Values)
pytools/io.py:119
↓ 2 callersMethodisDuplicate
AliParser.hh:74
↓ 2 callersMethodisSecondary
AliParser.hh:73
↓ 2 callersMethodls
IO.cpp:397
↓ 2 callersMethodnewSignalTH2
IO.cpp:358
↓ 2 callersMethodnextChromosome
FastaParser.cpp:25
↓ 2 callersMethodotherIndex
Interval.hh:35
↓ 2 callersFunctionparseChromosomeLength
HisMaker.cpp:3232
↓ 2 callersMethodpartitionSignal2D
HisMaker.cpp:2224
↓ 2 callersFunctionplot
(lk,bins,n,iter,prefix,maxp,minp)
callbaf.py:79
↓ 2 callersMethodprintGenotype
Genotyper.cpp:15
↓ 2 callersMethodproduceHistograms
HisMaker.cpp:3444
↓ 2 callersMethodproduceHistogramsFa
HisMaker.cpp:3592
↓ 2 callersMethodsignal_name
Returns TH1 or TH2 name for signal
pytools/io.py:98
↓ 2 callersMethodunique1
Interval.hh:30
↓ 1 callersMethodIO
IO.cpp:34
↓ 1 callersMethodIdVar
HisMaker.cpp:4825
↓ 1 callersMethodMaskVar
HisMaker.cpp:4951
↓ 1 callersMethodaddVcf
HisMaker.cpp:4702
↓ 1 callersMethodaggregate
HisMaker.cpp:4093
↓ 1 callersFunctioncalcLevelsInner
HisMaker.cpp:2500
↓ 1 callersMethodcallBAF
HisMaker.cpp:5317
↓ 1 callersMethodcallSVs
HisMaker.cpp:1144
↓ 1 callersMethodcallSVsSignal
HisMaker.cpp:1372
↓ 1 callersMethodcptrees
IO.cpp:419
↓ 1 callersMethodend2
Interval.hh:33
↓ 1 callersMethodeval
HisMaker.cpp:3171
↓ 1 callersFunctionf
(k,m,p)
plotbaf.py:45
↓ 1 callersFunctionf
(k,m,p)
plotrdbaf.py:58
↓ 1 callersMethodfit
EXOnator.cpp:326
↓ 1 callersMethodgenotype
HisMaker.cpp:748
↓ 1 callersMethodgetGT
VcfParser.hh:59
↓ 1 callersFunctiongetMedian
HisMaker.cpp:3742
↓ 1 callersFunctiongetMedianSec
EXOnator.cpp:298
↓ 1 callersMethodgetNAlt
VcfParser.hh:53
↓ 1 callersMethodgetNRef
VcfParser.hh:52
↓ 1 callersMethodgetQual
VcfParser.hh:54
↓ 1 callersMethodisNextUnmapped
AliParser.hh:70
↓ 1 callersMethodisQ0
AliParser.hh:64
↓ 1 callersFunctionlh
(samples)
plotbaf.py:51
↓ 1 callersFunctionlh
(samples)
plotrdbaf.py:64
↓ 1 callersFunctionmakeFrgLenHis
HisMaker.cpp:4048
↓ 1 callersFunctionmakeReadAndFrgHis
HisMaker.cpp:2841
↓ 1 callersMethodmakeTables
build root file
EXOnator.cpp:57
↓ 1 callersMethodmergeTrees
HisMaker.cpp:4250
↓ 1 callersMethodname1
Interval.hh:27
↓ 1 callersMethodname2
Interval.hh:31
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