Index

A

AAThreeToOne() (in module sequtils) AddDots() (in module align) align (module)

Align() (in module align) AmbiguousNTCodes() (in module sequtils) AssignAlleleInfo() (in module epitopes)

B

Base10Formatter() (in module plot)

C

ClassifyBySeason() (in module sequtils) CondenseSeqs() (in module sequtils)

CorrelationPlot() (in module plot) CumulativeFractionPlot() (in module plot)

D

DateToOrdinal() (in module sequtils)

E

Epitope (class in epitopes) epitopes (module)

EpitopeSummaryString() (in module epitopes)

F

FindMotifs() (in module sequtils)

G

GetEntries() (in module sequtils) GetEpitopeAlignments() (in module align)

GetSequence() (in module sequtils)

P

PairwiseStatistics() (in module align) ParseBoolValue() (in module src.io) ParseFileList() (in module src.io) ParseFloatValue() (in module src.io) ParseInfile() (in module src.io) ParseInfluenzaGenomes() (in module sequtils) ParseIntValue() (in module src.io) ParseSeqValue() (in module src.io) ParseStringValue() (in module src.io)

plot (module) PlotDistributionComparison() (in module plot) PlotLinearDensity() (in module plot) PrintAlleleSummary() (in module epitopes) PurgeAmbiguousDNA() (in module sequtils) PurgeDuplicates() (in module sequtils) PurgeRedundantEpitopes() (in module epitopes) PylabAvailable() (in module plot)

R

Read() (in module sequtils) ReadCompactIEDB() (in module epitopes) ReadSuperTypeClassification() (in module epitopes)

RemoveDots() (in module align) ReverseComplement() (in module sequtils)

S

ScipyAvailable() (in module plot) sequtils (module) SplitCSVLine() (in module epitopes) SplitLabel() (in module plot)

src.io (module) StripGapsToFirstSequence() (in module align) StripLeadingTrailingGapsToFirstSequence() (in module align) SubsetPValue() (in module plot)

T

Translate() (in module sequtils)

U

UnknownsToGaps() (in module sequtils)

W

Write() (in module sequtils)

WriteNEXUS() (in module sequtils)