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A
AAComposition (module)
AAIndex (module)
aakeys (AAIndex.Record attribute)
AtomProperty (module)
Autocorrelation (module)
C
CalculateAAComposition() (in module AAComposition)
(in module PyProteinAAComposition)
CalculateAADipeptideComposition() (in module AAComposition)
(in module PyProteinAAComposition)
CalculateAutoTotal() (in module Autocorrelation)
CalculateC() (in module CTD)
CalculateComposition() (in module CTD)
CalculateCompositionCharge() (in module CTD)
CalculateCompositionHydrophobicity() (in module CTD)
CalculateCompositionNormalizedVDWV() (in module CTD)
CalculateCompositionPolarity() (in module CTD)
CalculateCompositionPolarizability() (in module CTD)
CalculateCompositionSecondaryStr() (in module CTD)
CalculateCompositionSolventAccessibility() (in module CTD)
CalculateConjointTriad() (in module ConjointTriad)
CalculateCTD() (in module CTD)
CalculateD() (in module CTD)
CalculateDipeptideComposition() (in module AAComposition)
(in module PyProteinAAComposition)
CalculateDistribution() (in module CTD)
CalculateDistributionCharge() (in module CTD)
CalculateDistributionHydrophobicity() (in module CTD)
CalculateDistributionNormalizedVDWV() (in module CTD)
CalculateDistributionPolarity() (in module CTD)
CalculateDistributionPolarizability() (in module CTD)
CalculateDistributionSecondaryStr() (in module CTD)
CalculateDistributionSolventAccessibility() (in module CTD)
CalculateEachGearyAuto() (in module Autocorrelation)
CalculateEachMoranAuto() (in module Autocorrelation)
CalculateEachNormalizedMoreauBrotoAuto() (in module Autocorrelation)
CalculateGearyAuto() (in module Autocorrelation)
CalculateGearyAutoAvFlexibility() (in module Autocorrelation)
CalculateGearyAutoFreeEnergy() (in module Autocorrelation)
CalculateGearyAutoHydrophobicity() (in module Autocorrelation)
CalculateGearyAutoMutability() (in module Autocorrelation)
CalculateGearyAutoPolarizability() (in module Autocorrelation)
CalculateGearyAutoResidueASA() (in module Autocorrelation)
CalculateGearyAutoResidueVol() (in module Autocorrelation)
CalculateGearyAutoSteric() (in module Autocorrelation)
CalculateGearyAutoTotal() (in module Autocorrelation)
CalculateInteraction1() (in module PyInteraction)
CalculateInteraction2() (in module PyInteraction)
CalculateInteraction3() (in module PyInteraction)
CalculateMoranAuto() (in module Autocorrelation)
CalculateMoranAutoAvFlexibility() (in module Autocorrelation)
CalculateMoranAutoFreeEnergy() (in module Autocorrelation)
CalculateMoranAutoHydrophobicity() (in module Autocorrelation)
CalculateMoranAutoMutability() (in module Autocorrelation)
CalculateMoranAutoPolarizability() (in module Autocorrelation)
CalculateMoranAutoResidueASA() (in module Autocorrelation)
CalculateMoranAutoResidueVol() (in module Autocorrelation)
CalculateMoranAutoSteric() (in module Autocorrelation)
CalculateMoranAutoTotal() (in module Autocorrelation)
CalculateNormalizedMoreauBrotoAuto() (in module Autocorrelation)
CalculateNormalizedMoreauBrotoAutoAvFlexibility() (in module Autocorrelation)
CalculateNormalizedMoreauBrotoAutoFreeEnergy() (in module Autocorrelation)
CalculateNormalizedMoreauBrotoAutoHydrophobicity() (in module Autocorrelation)
CalculateNormalizedMoreauBrotoAutoMutability() (in module Autocorrelation)
CalculateNormalizedMoreauBrotoAutoPolarizability() (in module Autocorrelation)
CalculateNormalizedMoreauBrotoAutoResidueASA() (in module Autocorrelation)
CalculateNormalizedMoreauBrotoAutoResidueVol() (in module Autocorrelation)
CalculateNormalizedMoreauBrotoAutoSteric() (in module Autocorrelation)
CalculateNormalizedMoreauBrotoAutoTotal() (in module Autocorrelation)
CalculateT() (in module CTD)
CalculateTransition() (in module CTD)
CalculateTransitionCharge() (in module CTD)
CalculateTransitionHydrophobicity() (in module CTD)
CalculateTransitionNormalizedVDWV() (in module CTD)
CalculateTransitionPolarity() (in module CTD)
CalculateTransitionPolarizability() (in module CTD)
CalculateTransitionSecondaryStr() (in module CTD)
CalculateTransitionSolventAccessibility() (in module CTD)
cmp() (in module PyDNAnacutil)
ComputeBinNum() (in module PyDNAnacutil)
ComputeQuantileBoundaries() (in module PyDNAnacutil)
ConjointTriad (module)
ConvertPhycheIndexToDict() (in module PyPretreatDNA)
CTD (module)
D
DictToCSV() (in module PyPreTools)
Diversity() (in module PyDNAnacutil)
DNAChecks() (in module PyPretreatDNA)
E
extend() (AAIndex.MatrixRecord method)
(AAIndex.Record method)
ExtendPhycheIndex() (in module PyDNAacutil)
F
FindRevcomp() (in module PyDNAnacutil)
Frequency() (in module PyDNAnacutil)
(in module PyPretreatDNA)
G
GeneratePhycheValue() (in module PyPretreatDNA)
get() (AAIndex.MatrixRecord method)
(AAIndex.Record method)
(in module AAIndex)
GetAAComposition() (in module PseudoAAC)
(in module QuasiSequenceOrder)
GetAAIndex1() (in module AAIndex)
GetAAIndex23() (in module AAIndex)
GetAbsoluteAtomicProperty() (in module AtomProperty)
GetAPseudoAAC() (in module PseudoAAC)
GetAPseudoAAC1() (in module PseudoAAC)
GetAPseudoAAC2() (in module PseudoAAC)
GetCorrelationFunction() (in module PseudoAAC)
GetData() (in module PyPretreatDNA)
GetDNA (module)
GetDNAFromUniGene() (in module GetDNA)
Getkmers() (in module AAComposition)
(in module PyProteinAAComposition)
GetPDB() (in module GetProtein)
GetProtein (module)
GetProteinFromUniprot (module)
GetProteinSequence() (in module GetProtein)
(in module GetProteinFromUniprot)
GetProteinSequenceFromTxt() (in module GetProtein)
(in module GetProteinFromUniprot)
GetPseudoAAC() (in module PseudoAAC)
GetPseudoAAC1() (in module PseudoAAC)
GetPseudoAAC2() (in module PseudoAAC)
GetQuasiSequenceOrder() (in module QuasiSequenceOrder)
GetQuasiSequenceOrder1() (in module QuasiSequenceOrder)
GetQuasiSequenceOrder1Grant() (in module QuasiSequenceOrder)
GetQuasiSequenceOrder1SW() (in module QuasiSequenceOrder)
GetQuasiSequenceOrder2() (in module QuasiSequenceOrder)
GetQuasiSequenceOrder2Grant() (in module QuasiSequenceOrder)
GetQuasiSequenceOrder2SW() (in module QuasiSequenceOrder)
GetQuasiSequenceOrderp() (in module QuasiSequenceOrder)
GetRelativeAtomicProperty() (in module AtomProperty)
GetSeqFromPDB() (in module GetProtein)
GetSequenceCheckDna() (in module PyPretreatDNA)
GetSequenceOrderCorrelationFactor() (in module PseudoAAC)
GetSequenceOrderCorrelationFactorForAPAAC() (in module PseudoAAC)
GetSequenceOrderCouplingNumber() (in module QuasiSequenceOrder)
GetSequenceOrderCouplingNumberGrant() (in module QuasiSequenceOrder)
GetSequenceOrderCouplingNumberp() (in module QuasiSequenceOrder)
GetSequenceOrderCouplingNumberSW() (in module QuasiSequenceOrder)
GetSequenceOrderCouplingNumberTotal() (in module QuasiSequenceOrder)
GetSpectrumDict() (in module AAComposition)
(in module PyProteinAAComposition)
GetSubSeq (module)
GetSubSequence() (in module GetSubSeq)
grep() (in module AAIndex)
I
IdXS() (in module PyDNAnacutil)
init() (in module AAIndex)
init_from_file() (in module AAIndex)
InterruptableThread (class in GetProtein)
IsFasta() (in module GetDNA)
(in module GetProtein)
(in module PyPretreatDNA)
IsSequenceList() (in module PyPretreatDNA)
IsUnderAlphabet() (in module GetDNA)
(in module PyPretreatDNA)
L
ListToCSV() (in module PyPreTools)
M
MakeACVector() (in module PyDNAacutil)
MakeCCVector() (in module PyDNAacutil)
MakeIndex() (in module PyDNAnacutil)
MakeIndexUptoK() (in module PyDNAnacutil)
MakeIndexUptoKRevcomp() (in module PyDNAnacutil)
MakeKmerList() (in module PyDNAnacutil)
MakeKmerVector() (in module PyDNAnacutil)
MakeRevcompKmerList() (in module PyDNAnacutil)
MakeSequenceVector() (in module PyDNAnacutil)
MakeUptoKmerList() (in module PyDNAnacutil)
MatrixRecord (class in AAIndex)
median() (AAIndex.MatrixRecord method)
(AAIndex.Record method)
N
NormalizeEachAAP() (in module Autocorrelation)
(in module PseudoAAC)
NormalizeIndex() (in module PyPretreatDNA)
NormalizeVector() (in module PyDNAnacutil)
P
pdbDownload() (in module GetProtein)
pdbSeq() (in module GetProtein)
ProCheck (module)
ProteinCheck() (in module ProCheck)
(in module PyPretreatPro)
PseudoAAC (module)
PyDNAacutil (module)
PyDNAnacutil (module)
PyInteraction (module)
PyPreTools (module)
PyPretreatDNA (module)
PyPretreatPro (module)
PyProteinAAComposition (module)
Q
QuasiSequenceOrder (module)
R
ReadFasta() (in module GetDNA)
(in module GetProtein)
(in module PyPretreatDNA)
ReadFastaCheckDna() (in module PyPretreatDNA)
ReadFastaSequence() (in module PyDNAnacutil)
ReadFastaYield() (in module PyPretreatDNA)
ReadSequenceAndNumbers() (in module PyDNAnacutil)
Record (class in AAIndex)
result (GetProtein.InterruptableThread attribute)
run() (GetProtein.InterruptableThread method)
S
search() (in module AAIndex)
Seq (class in GetDNA)
(class in GetProtein)
(class in PyPretreatDNA)
StandardDeviation() (in module PyPretreatDNA)
StringtoNum() (in module CTD)
Substitute() (in module PyDNAnacutil)
T
test_PyInteration (module)
test_pyinteration() (in module test_PyInteration)
test_PyMolecule (module)
test_pymolecule() (in module test_PyMolecule)
timelimited (class in GetProtein)
TimeoutException
TupleToCSV() (in module PyPreTools)
U
unZip() (in module GetProtein)
W
WriteLibsvm() (in module PyPretreatDNA)
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