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T

Tabular - enum entry in org.veupathdb.lib.blast.common.fields.FormatType

 

TabularWithCommentLines - enum entry in org.veupathdb.lib.blast.common.fields.FormatType

 

TaxIDList - class in org.veupathdb.lib.blast.common.fields

-taxidlist <String>Restrict search of database to include only the specified taxonomy IDs

TaxIDs - class in org.veupathdb.lib.blast.common.fields

-taxids <String>Restrict search of database to include only the specified taxonomy IDs (multiple IDs delimited by ',')

tblastn(ObjectNode) - function in org.veupathdb.lib.blast.Blast

Creates a new TBlastN instance by parsing the given JSON input.

tblastn() - function in org.veupathdb.lib.blast.Blast

Creates a new, defaulted TBlastN instance.

TBlastN - enum entry in org.veupathdb.lib.blast.BlastTool

 

TBlastN - class in org.veupathdb.lib.blast.tblastn

Protein Query-Translated Subject BLAST 2.11.

TBlastN - enum entry in org.veupathdb.lib.blast.tblastn.fields.TBlastNTaskValue

 

TBlastNFast - enum entry in org.veupathdb.lib.blast.tblastn.fields.TBlastNTaskValue

 

TBlastNTask - class in org.veupathdb.lib.blast.tblastn.fields

-task <String>Permissible values:

• tblastn

• tblastn-fast

Task to execute.

TBlastNTaskValue - class in org.veupathdb.lib.blast.tblastn.fields

 

tblastx(ObjectNode) - function in org.veupathdb.lib.blast.Blast

Creates a new TBlastX instance by parsing the given JSON input.

tblastx() - function in org.veupathdb.lib.blast.Blast

Creates a new, defaulted TBlastX instance.

TBlastX - enum entry in org.veupathdb.lib.blast.BlastTool

 

TBlastX - class in org.veupathdb.lib.blast.tblastx

Translated Query-Translated Subject BLAST 2.11.

TemplateLength - class in org.veupathdb.lib.blast.blastn.fields

-template_length <Integer>Permissible values:

• 16

• 18

• 21

Discontiguous MegaBLAST template length

TemplateLengthValue - class in org.veupathdb.lib.blast.blastn.fields

 

TemplateType - class in org.veupathdb.lib.blast.blastn.fields

-template_type <String>Permissible Values:

• coding

• coding_and_optimal

• optimal

Discontiguous MegaBLAST template type

TemplateTypeType - class in org.veupathdb.lib.blast.blastn.fields

 

Threshold - class in org.veupathdb.lib.blast.common.fields

-threshold <Real, >=0>Minimum word score such that the word is added to the BLAST lookup table

toCliArray() - function in org.veupathdb.lib.blast.serial.BlastN

Converts the current BlastCommand to an array of strings making up a CLI call.

toCliArray() - function in org.veupathdb.lib.blast.serial.BlastP

Converts the current BlastCommand to an array of strings making up a CLI call.

toCliArray() - function in org.veupathdb.lib.blast.serial.BlastX

Converts the current BlastCommand to an array of strings making up a CLI call.

toCliArray() - function in org.veupathdb.lib.blast.serial.BlastCLI

Converts the current BlastCommand to an array of strings making up a CLI call.

toCliArray() - function in org.veupathdb.lib.blast.serial.BlastQueryBase

Converts the current BlastCommand to an array of strings making up a CLI call.

toCliArray() - function in org.veupathdb.lib.blast.serial.BlastQueryWithIPG

Converts the current BlastCommand to an array of strings making up a CLI call.

toCliArray() - function in org.veupathdb.lib.blast.serial.BlastQueryWithLists

Converts the current BlastCommand to an array of strings making up a CLI call.

toCliArray() - function in org.veupathdb.lib.blast.serial.DeltaBlast

Converts the current BlastCommand to an array of strings making up a CLI call.

toCliArray() - function in org.veupathdb.lib.blast.serial.BlastFormatter

Converts the current BlastCommand to an array of strings making up a CLI call.

toCliArray() - function in org.veupathdb.lib.blast.serial.PSIBlast

Converts the current BlastCommand to an array of strings making up a CLI call.

toCliArray() - function in org.veupathdb.lib.blast.serial.RPSBlast

Converts the current BlastCommand to an array of strings making up a CLI call.

toCliArray() - function in org.veupathdb.lib.blast.serial.RPSTBlastN

Converts the current BlastCommand to an array of strings making up a CLI call.

toCliArray() - function in org.veupathdb.lib.blast.serial.BlastCommand

Converts the current BlastCommand to an array of strings making up a CLI call.

toCliArray() - function in org.veupathdb.lib.blast.serial.TBlastN

Converts the current BlastCommand to an array of strings making up a CLI call.

toCliArray() - function in org.veupathdb.lib.blast.serial.TBlastX

Converts the current BlastCommand to an array of strings making up a CLI call.

toCliString() - function in org.veupathdb.lib.blast.serial.BlastN

Renders the current BlastCommand as a CLI call string.

toCliString() - function in org.veupathdb.lib.blast.serial.BlastP

Renders the current BlastCommand as a CLI call string.

toCliString() - function in org.veupathdb.lib.blast.serial.BlastX

Renders the current BlastCommand as a CLI call string.

toCliString() - function in org.veupathdb.lib.blast.serial.BlastCLI

Renders the current BlastCommand as a CLI call string.

toCliString() - function in org.veupathdb.lib.blast.serial.BlastQueryBase

Renders the current BlastCommand as a CLI call string.

toCliString() - function in org.veupathdb.lib.blast.serial.BlastQueryWithIPG

Renders the current BlastCommand as a CLI call string.

toCliString() - function in org.veupathdb.lib.blast.serial.BlastQueryWithLists

Renders the current BlastCommand as a CLI call string.

toCliString() - function in org.veupathdb.lib.blast.serial.DeltaBlast

Renders the current BlastCommand as a CLI call string.

toCliString() - function in org.veupathdb.lib.blast.serial.BlastFormatter

Renders the current BlastCommand as a CLI call string.

toCliString() - function in org.veupathdb.lib.blast.serial.PSIBlast

Renders the current BlastCommand as a CLI call string.

toCliString() - function in org.veupathdb.lib.blast.serial.RPSBlast

Renders the current BlastCommand as a CLI call string.

toCliString() - function in org.veupathdb.lib.blast.serial.RPSTBlastN

Renders the current BlastCommand as a CLI call string.

toCliString() - function in org.veupathdb.lib.blast.serial.BlastCommand

Renders the current BlastCommand as a CLI call string.

toCliString() - function in org.veupathdb.lib.blast.serial.TBlastN

Renders the current BlastCommand as a CLI call string.

toCliString() - function in org.veupathdb.lib.blast.serial.TBlastX

Renders the current BlastCommand as a CLI call string.

toJson() - function in org.veupathdb.lib.blast.serial.BlastN

Serializes the current BlastCommand to a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.Dust

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.FilteringDB

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.IndexName

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.MinRawGappedScore

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.NonGreedy

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.OffDiagonalRange

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.Penalty

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.PercentIdentity

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.Reward

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.SoftMaskingN

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.BlastNTask

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.TemplateLength

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.TemplateType

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.UseIndex

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.WindowMaskerDB

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.WindowMaskerTaxID

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.BlastP

Serializes the current BlastCommand to a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.BlastPTask

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.CompBasedStatsP

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.ScoringMatrixP

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.SegP

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.SoftMaskingP

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.WordSizeP

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.BlastX

Serializes the current BlastCommand to a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.BlastXTask

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.CompBasedStatsX

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.ScoringMatrixX

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.SegX

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.SoftMaskingX

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.WordSizeX

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.BlastCLI

Serializes the current BlastCommand to a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.BlastQueryBase

Serializes the current BlastCommand to a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.BlastQueryWithIPG

Serializes the current BlastCommand to a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.BlastQueryWithLists

Serializes the current BlastCommand to a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.AutoCPUCores

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.BestHitOverhang

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.BestHitScoreEdge

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.CullingLimit

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.DBFile

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.DBGenCode

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.DBHardMask

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.DBSize

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.DBSoftMask

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.EntrezQuery

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.ExpectValue

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.GIList

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.GapExtend

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.GapOpen

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.GapTrigger

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.HTML

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.HelpLong

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.HelpShort

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.IPGList

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.InPSSMFile

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.InclusionEValueThreshold

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.LineLength

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.LowercaseMasking

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.MaxHSPs

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.MaxIntronLength

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.MaxTargetSeqs

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.MultiThreadingMode

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.NegativeGIList

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.NegativeIPGList

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.NegativeSeqIDList

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.NegativeTaxIDList

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.NegativeTaxIDs

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.NumAlignments

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.NumCPUCores

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.NumDescriptions

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.NumIterations

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.OutASCIIPSSMFile

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.OutFile

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.OutFormat

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.OutPSSMFile

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.ParseDefLines

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.PseudoCount

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.QueryCoverageHSPPercent

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.QueryFile

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.QueryGenCode

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.QueryLocation

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.Remote

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.SaveEachPSSM

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.SavePSSMAfterLastRound

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.SearchSpace

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.ImportSearchStrategy

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.ExportSearchStrategy

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.Seg

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.SeqIDList

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.ShowGIs

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.SortHSPs

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.SortHits

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.Strand

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.SubjectBestHit

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.SubjectFile

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.SubjectLocation

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.SumStats

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.TaxIDList

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.TaxIDs

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.Threshold

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.UngappedAlignmentsOnly

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.UseSmithWatermanTraceback

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.Version

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.WindowSize

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.ExtensionDropoffUngapped

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.ExtensionDropoffPrelimGapped

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.ExtensionDropoffFinalGapped

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.DeltaBlast

Serializes the current BlastCommand to a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.CompBasedStatsDelta

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.DomainInclusionEValueThreshold

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.MatrixDelta

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.RPSDB

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.SegDelta

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.ShowDomainHits

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.SoftMaskingDelta

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.WordSizeDelta

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.err.ErrorMap

 

toJson() - function in org.veupathdb.lib.blast.serial.BlastFormatter

Serializes the current BlastCommand to a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.Archive

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.RID

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.PSIBlast

Serializes the current BlastCommand to a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.CompBasedStatsPSI

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.IgnoreMSAMaster

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.InMSAFile

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.MSAMasterIndex

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.MatrixPSI

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.PHIPatternFile

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.SegPSI

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.SoftMaskingPSI

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.WordSizePSI

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.RPSBlast

Serializes the current BlastCommand to a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.CompBasedStatsRPS

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.SegRPS

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.SoftMaskingRPS

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.RPSTBlastN

Serializes the current BlastCommand to a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.CompBasedStatsRPSTN

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.SegRPSTN

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.SoftMaskingRPSTN

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.BlastCommand

Serializes the current BlastCommand to a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.BlastField

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.TBlastN

Serializes the current BlastCommand to a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.CompBasedStatsTN

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.ScoringMatrixTN

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.SegTN

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.SoftMaskingTN

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.TBlastNTask

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.WordSizeTBlastN

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.TBlastX

Serializes the current BlastCommand to a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.ScoringMatrixTX

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.SegTX

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.SoftMaskingTX

Serializes this field into a JSON ObjectNode.

toJson() - function in org.veupathdb.lib.blast.serial.WordSizeTX

Serializes this field into a JSON ObjectNode.

toMap() - function in org.veupathdb.lib.blast.err.ErrorMap

Extracts a Java Map of errors from this ErrorMap.

TotalNumberOfGaps - enum entry in org.veupathdb.lib.blast.common.fields.FormatField

 

TwentyOne - enum entry in org.veupathdb.lib.blast.blastn.fields.TemplateLengthValue

 

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