poseidon-hs-1.5.5.0: A package with tools for working with Poseidon genotype data

Index

+&+Poseidon.ServerClient
A1240KPoseidon.Janno
AccessionIDPoseidon.Janno
AccessionIDRun 
1 (Type/Class)Poseidon.SequencingSource
2 (Data Constructor)Poseidon.SequencingSource
AccessionIDSample 
1 (Type/Class)Poseidon.SequencingSource
2 (Data Constructor)Poseidon.SequencingSource
AccessionIDStudy 
1 (Type/Class)Poseidon.SequencingSource
2 (Data Constructor)Poseidon.SequencingSource
AddJannoColAllPoseidon.ServerClient
AddJannoColListPoseidon.ServerClient
AddJannoColSpecPoseidon.ServerClient
AllJannoColumnsPoseidon.CLI.Jannocoalesce
ApiReturnDataPoseidon.ServerClient
ApiReturnExtIndividualInfoPoseidon.ServerClient
ApiReturnGroupInfoPoseidon.ServerClient
ApiReturnJannoPoseidon.ServerClient
ApiReturnPackageInfoPoseidon.ServerClient
ArborAncestralPlusPoseidon.Janno
ArborCompletePoseidon.Janno
ArborPrimePlusPoseidon.Janno
ArchiveEndpoint 
1 (Type/Class)Poseidon.ServerClient
2 (Data Constructor)Poseidon.ServerClient
asVersionPoseidon.PoseidonVersion
avgPoseidon.MathHelpers
BCADAge 
1 (Type/Class)Poseidon.Janno
2 (Data Constructor)Poseidon.Janno
BibEntry 
1 (Type/Class)Poseidon.BibFile
2 (Data Constructor)Poseidon.BibFile
bibEntryFieldsPoseidon.BibFile
bibEntryIdPoseidon.BibFile
bibEntryTypePoseidon.BibFile
BibTeXPoseidon.BibFile
C14Poseidon.Janno
CharCountPoseidon.Utils
CharInfPoseidon.Utils
checkAtLeastOnePoseidonIDPoseidon.SequencingSource
checkFilePoseidon.Utils
checkIfAllEntitiesExistPoseidon.EntityTypes
checkRunsUniquePoseidon.SequencingSource
ChecksumAllPoseidon.CLI.Rectify
ChecksumNonePoseidon.CLI.Rectify
ChecksumsDetailPoseidon.CLI.Rectify
ChecksumsToRectifyPoseidon.CLI.Rectify
ChronicleOptions 
1 (Type/Class)Poseidon.CLI.Chronicle
2 (Data Constructor)Poseidon.CLI.Chronicle
chroniclePackagesPoseidon.Chronicle
ChronOperationPoseidon.CLI.Chronicle
cliArchiveBaseDirsPoseidon.CLI.Serve
cliCertFilesPoseidon.CLI.Serve
cliIgnoreChecksumsPoseidon.CLI.Serve
cliPortPoseidon.CLI.Serve
cliZipDirPoseidon.CLI.Serve
CoalesceJannoColumnSpecPoseidon.CLI.Jannocoalesce
concludePoseidon.CLI.Validate
ContextualPoseidon.Janno
contributorEmailPoseidon.Contributor
contributorNamePoseidon.Contributor
contributorORCIDPoseidon.Contributor
ContributorSpec 
1 (Type/Class)Poseidon.Contributor
2 (Data Constructor)Poseidon.Contributor
contributorSpecParserPoseidon.Contributor
convertGenoToPoseidon.CLI.Genoconvert
copyDirectoryPoseidon.CLI.Timetravel
CounterCopiedPoseidon.CLI.Jannocoalesce
CounterMismatchesPoseidon.CLI.Jannocoalesce
countPresencePoseidon.CLI.Survey
CreateChronPoseidon.CLI.Chronicle
createMinimalJannoPoseidon.Janno
createMinimalSamplePoseidon.Janno
CsvNamedRecord 
1 (Type/Class)Poseidon.Janno
2 (Data Constructor)Poseidon.Janno
decodingOptionsPoseidon.Janno
DefaultLogPoseidon.Utils
defaultPackageReadOptionsPoseidon.Package
determineNonExistentEntitiesPoseidon.EntityTypes
determinePackageOutNamePoseidon.Utils
determinePackageStatePoseidon.CLI.Fetch
determineRelevantPackagesPoseidon.EntityTypes
DiploidPoseidon.Janno
downloadAndUnzipPackagePoseidon.CLI.Fetch
downloadPackagePoseidon.CLI.Fetch
DSPoseidon.Janno
dummyBibEntryPoseidon.BibFile
encodingOptionsPoseidon.Janno
EntitiesDirectPoseidon.EntityTypes
EntitiesFromFilePoseidon.EntityTypes
EntitiesListPoseidon.EntityTypes
entitiesListPPoseidon.EntityTypes
EntityInputPoseidon.EntityTypes
EntitySpecPoseidon.EntityTypes
entitySpecParserPoseidon.EntityTypes
Env 
1 (Type/Class)Poseidon.Utils
2 (Data Constructor)Poseidon.Utils
envErrorLengthPoseidon.Utils
envInputPlinkModePoseidon.Utils
envLogActionPoseidon.Utils
EqualLocalRemotePoseidon.CLI.Fetch
ErrorLengthPoseidon.Utils
ExcludePoseidon.EntityTypes
ExcludeJannoColumnsPoseidon.CLI.Jannocoalesce
explicitNAPoseidon.Janno
ExtendedIndividualInfo 
1 (Type/Class)Poseidon.ServerClient
2 (Data Constructor)Poseidon.ServerClient
extIndInfo2IndInfoCollectionPoseidon.ServerClient
extIndInfoAddColsPoseidon.ServerClient
extIndInfoGroupsPoseidon.ServerClient
extIndInfoIsLatestPoseidon.ServerClient
extIndInfoNamePoseidon.ServerClient
extIndInfoPacPoseidon.ServerClient
FemalePoseidon.Janno
FetchOptions 
1 (Type/Class)Poseidon.CLI.Fetch
2 (Data Constructor)Poseidon.CLI.Fetch
fillMissingSnpSetsPoseidon.CLI.Forge
filterBibEntriesPoseidon.CLI.Forge
filterLookupPoseidon.Janno
filterLookupOptionalPoseidon.Janno
filterSeqSourceRowsPoseidon.CLI.Forge
filterToRelevantPackagesPoseidon.Package
findAllPoseidonYmlFilesPoseidon.Package
FirstPoseidon.Janno
ForgeOptions 
1 (Type/Class)Poseidon.CLI.Forge
2 (Data Constructor)Poseidon.CLI.Forge
ForgeOutModePoseidon.CLI.Forge
formatPoseidon.GenotypeData
frequencyPoseidon.CLI.Summarise
GenoconvertOptions 
1 (Type/Class)Poseidon.CLI.Genoconvert
2 (Data Constructor)Poseidon.CLI.Genoconvert
GenoDataSourcePoseidon.GenotypeData
GenoDirectPoseidon.GenotypeData
genoFilePoseidon.GenotypeData
genoFileChkSumPoseidon.GenotypeData
GenoInputPoseidon.CLI.OptparseApplicativeParsers
GenoOutPoseidon.CLI.Forge
GenotypeDataSpec 
1 (Type/Class)Poseidon.GenotypeData
2 (Data Constructor)Poseidon.GenotypeData
GenotypeFormatEigenstratPoseidon.GenotypeData
GenotypeFormatPlinkPoseidon.GenotypeData
GenotypeFormatSpecPoseidon.GenotypeData
getAllGroupInfoPoseidon.Package
getChecksumPoseidon.Utils
getConsensusSnpEntryPoseidon.GenotypeData
getCsvNRPoseidon.Janno
getExtendedIndividualInfoPoseidon.Package
getGenoDirectPoseidon.GenotypeData
getGitCommitHashPoseidon.Chronicle
getJannoListPoseidon.Janno
getJannoRowsFromPacPoseidon.Package
getJointGenotypeDataPoseidon.Package
getJointIndividualInfoPoseidon.Package
getJointJannoPoseidon.Package
getKeyFromJannoPoseidon.CLI.Jannocoalesce
getMaybeJannoListPoseidon.Janno
getPacBaseDirsPoseidon.GenotypeData
getPackageVersionPoseidon.Chronicle
getPacNamePoseidon.EntityTypes
getPacVersionPoseidon.EntityTypes
getRunAccessionPoseidon.SequencingSource
getSampleAccessionPoseidon.SequencingSource
getSeqSourceRowListPoseidon.SequencingSource
getStudyAccessionPoseidon.SequencingSource
gIsLatestPoseidon.ServerClient
gitCheckoutPoseidon.CLI.Timetravel
gNamePoseidon.ServerClient
gNrIndividualsPoseidon.ServerClient
gPackagePoseidon.ServerClient
GroupPoseidon.EntityTypes
GroupInfo 
1 (Type/Class)Poseidon.ServerClient
2 (Data Constructor)Poseidon.ServerClient
HalfPoseidon.Janno
handlePackageByStatePoseidon.CLI.Fetch
HaploidPoseidon.Janno
HasNameAndVersionPoseidon.EntityTypes
hasVersionPoseidon.EntityTypes
IdenticalPoseidon.Janno
IncludePoseidon.EntityTypes
IncludeJannoColumnsPoseidon.CLI.Jannocoalesce
IndPoseidon.EntityTypes
indFilePoseidon.GenotypeData
indFileChkSumPoseidon.GenotypeData
indInfoConformsToEntitySpecsPoseidon.EntityTypes
indInfoGroupsPoseidon.EntityTypes
indInfoNamePoseidon.EntityTypes
indInfoPacPoseidon.EntityTypes
IndividualInfo 
1 (Type/Class)Poseidon.EntityTypes
2 (Data Constructor)Poseidon.EntityTypes
IndividualInfoCollectionPoseidon.EntityTypes
InitOptions 
1 (Type/Class)Poseidon.CLI.Init
2 (Data Constructor)Poseidon.CLI.Init
INSDCAnalysisPoseidon.Janno
INSDCBioSamplePoseidon.Janno
INSDCExperimentPoseidon.Janno
INSDCProjectPoseidon.Janno
INSDCRunPoseidon.Janno
INSDCSamplePoseidon.Janno
INSDCStudyPoseidon.Janno
isLatestInCollectionPoseidon.EntityTypes
isMD5HashPoseidon.SequencingSource
jAdditionalColumnsPoseidon.Janno
jAlternativeIDsPoseidon.Janno
JannoCaptureTypePoseidon.Janno
JannoCoalesceOptions 
1 (Type/Class)Poseidon.CLI.Jannocoalesce
2 (Data Constructor)Poseidon.CLI.Jannocoalesce
JannoCountry 
1 (Type/Class)Poseidon.Janno
2 (Data Constructor)Poseidon.Janno
JannoDateTypePoseidon.Janno
JannoGenotypePloidyPoseidon.Janno
jannoHeaderStringPoseidon.Janno
JannoLibraryBuiltPoseidon.Janno
JannoList 
1 (Type/Class)Poseidon.Janno
2 (Data Constructor)Poseidon.Janno
JannoRow 
1 (Type/Class)Poseidon.Janno
2 (Data Constructor)Poseidon.Janno
JannoRows 
1 (Type/Class)Poseidon.Janno
2 (Data Constructor)Poseidon.Janno
JannoSex 
1 (Type/Class)Poseidon.Janno
2 (Data Constructor)Poseidon.Janno
JannoSourceBaseDirsPoseidon.CLI.Jannocoalesce
JannoSourceSinglePoseidon.CLI.Jannocoalesce
JannoSourceSpecPoseidon.CLI.Jannocoalesce
JannoStringListPoseidon.Janno
JannoUDGPoseidon.Janno
jCaptureTypePoseidon.Janno
jCollectionIDPoseidon.Janno
jCommentsPoseidon.Janno
jContaminationPoseidon.Janno
jContaminationErrPoseidon.Janno
jContaminationMeasPoseidon.Janno
jContaminationNotePoseidon.Janno
jCountryPoseidon.Janno
jCountryISOPoseidon.Janno
jCoverageOnTargetsPoseidon.Janno
jDamagePoseidon.Janno
jDataPreparationPipelineURLPoseidon.Janno
jDateBCADMedianPoseidon.Janno
jDateBCADStartPoseidon.Janno
jDateBCADStopPoseidon.Janno
jDateC14LabnrPoseidon.Janno
jDateC14UncalBPPoseidon.Janno
jDateC14UncalBPErrPoseidon.Janno
jDateNotePoseidon.Janno
jDateTypePoseidon.Janno
jEndogenousPoseidon.Janno
jGeneticSexPoseidon.Janno
jGeneticSourceAccessionIDsPoseidon.Janno
jGenotypePloidyPoseidon.Janno
jGroupNamePoseidon.Janno
jKeywordsPoseidon.Janno
jLatitudePoseidon.Janno
jLibraryBuiltPoseidon.Janno
jLibraryNamesPoseidon.Janno
jLocationPoseidon.Janno
jLongitudePoseidon.Janno
jMTHaplogroupPoseidon.Janno
jNrLibrariesPoseidon.Janno
jNrSNPsPoseidon.Janno
joinEntriesPoseidon.GenotypeData
jPoseidonIDPoseidon.Janno
jPrimaryContactPoseidon.Janno
jPublicationPoseidon.Janno
jRelationDegreePoseidon.Janno
jRelationNotePoseidon.Janno
jRelationToPoseidon.Janno
jRelationTypePoseidon.Janno
jSitePoseidon.Janno
jSourceTissuePoseidon.Janno
jUDGPoseidon.Janno
JURI 
1 (Type/Class)Poseidon.Janno
2 (Data Constructor)Poseidon.Janno
jYHaplogroupPoseidon.Janno
latestPoseidonVersionPoseidon.PoseidonVersion
Latitude 
1 (Type/Class)Poseidon.Janno
2 (Data Constructor)Poseidon.Janno
ListEntityPoseidon.CLI.List
ListGroupsPoseidon.CLI.List
ListIndividualsPoseidon.CLI.List
ListOptions 
1 (Type/Class)Poseidon.CLI.List
2 (Data Constructor)Poseidon.CLI.List
ListPackagesPoseidon.CLI.List
loadGenotypeDataPoseidon.GenotypeData
loadIndividualsPoseidon.GenotypeData
LogAPoseidon.Utils
logDebugPoseidon.Utils
logErrorPoseidon.Utils
logInfoPoseidon.Utils
LogModePoseidon.Utils
logWarningPoseidon.Utils
logWithEnvPoseidon.Utils
Longitude 
1 (Type/Class)Poseidon.Janno
2 (Data Constructor)Poseidon.Janno
MajorPoseidon.Version
makeAccessionIDPoseidon.Janno
makeAccessionIDRunPoseidon.SequencingSource
makeAccessionIDSamplePoseidon.SequencingSource
makeAccessionIDStudyPoseidon.SequencingSource
makeChroniclePoseidon.Chronicle
makeJannoCountryUnsafePoseidon.Janno
makeLatitudePoseidon.Janno
makeLongitudePoseidon.Janno
makeMD5Poseidon.SequencingSource
makeNewJannoRowsPoseidon.CLI.Jannocoalesce
makePacNameAndVersionPoseidon.EntityTypes
makePseudoPackageFromGenotypeDataPoseidon.Package
makeSimpleDatePoseidon.SequencingSource
makeSSFLibraryBuiltPoseidon.SequencingSource
makeSSFUDGPoseidon.SequencingSource
MalePoseidon.Janno
matchWithOptionalStripPoseidon.CLI.Jannocoalesce
maybeShowPoseidon.CLI.Summarise
maybeShowStringPoseidon.CLI.Summarise
MD5 
1 (Type/Class)Poseidon.SequencingSource
2 (Data Constructor)Poseidon.SequencingSource
meanAndSdIntegerPoseidon.MathHelpers
meanAndSdRoundToPoseidon.MathHelpers
mergeRowPoseidon.CLI.Jannocoalesce
MinimalOutPoseidon.CLI.Forge
minimalOutputDocuPoseidon.CLI.OptparseApplicativeParsers
minimalRequiredClientVersionPoseidon.PoseidonVersion
MinorPoseidon.Version
MinusPoseidon.Janno
MixedPoseidon.Janno
MixedSSDSPoseidon.Janno
ModernPoseidon.Janno
newMinimalPackageTemplatePoseidon.Package
newPackageTemplatePoseidon.Package
NoLogPoseidon.Utils
noLogPoseidon.Utils
NormalOutPoseidon.CLI.Forge
NotLocalPoseidon.CLI.Fetch
onlyGenoOutputDocuPoseidon.CLI.OptparseApplicativeParsers
ORCID 
1 (Type/Class)Poseidon.Contributor
2 (Data Constructor)Poseidon.Contributor
OtherPoseidon.Janno
OtherCapturePoseidon.Janno
OtherDegreePoseidon.Janno
OtherIDPoseidon.Janno
PacPoseidon.EntityTypes
PacBaseDirPoseidon.GenotypeData
PackageInfo 
1 (Type/Class)Poseidon.ServerClient
2 (Data Constructor)Poseidon.ServerClient
PackageIteration 
1 (Type/Class)Poseidon.Chronicle
2 (Data Constructor)Poseidon.Chronicle
PackageReadOptions 
1 (Type/Class)Poseidon.Package
2 (Data Constructor)Poseidon.Package
PackageStatePoseidon.CLI.Fetch
packagesToPackageInfosPoseidon.Package
PackageVersionUpdate 
1 (Type/Class)Poseidon.CLI.Rectify
2 (Data Constructor)Poseidon.CLI.Rectify
PacNameAndVersion 
1 (Type/Class)Poseidon.EntityTypes
2 (Data Constructor)Poseidon.EntityTypes
pacReadOpts 
1 (Function)Poseidon.CLI.Summarise
2 (Function)Poseidon.CLI.Forge
3 (Function)Poseidon.CLI.Fetch
4 (Function)Poseidon.CLI.Timetravel
5 (Function)Poseidon.CLI.Chronicle
pacStateCommitPoseidon.Chronicle
pacStatePathPoseidon.Chronicle
pacStateTitlePoseidon.Chronicle
pacStateVersionPoseidon.Chronicle
padLeftPoseidon.Utils
padRightPoseidon.Utils
panavNamePoseidon.EntityTypes
panavVersionPoseidon.EntityTypes
parseArchiveBasePathsPoseidon.CLI.OptparseApplicativeParsers
parseArchiveEndpointPoseidon.CLI.OptparseApplicativeParsers
parseBasePathPoseidon.CLI.OptparseApplicativeParsers
parseBasePathsPoseidon.CLI.OptparseApplicativeParsers
parseCertFilePoseidon.CLI.OptparseApplicativeParsers
parseChainFilePoseidon.CLI.OptparseApplicativeParsers
parseChecksumsToRectifyPoseidon.CLI.OptparseApplicativeParsers
parseChronOperationPoseidon.CLI.OptparseApplicativeParsers
parseChronOutPathPoseidon.CLI.OptparseApplicativeParsers
parseChronUpdatePathPoseidon.CLI.OptparseApplicativeParsers
parseContributorsPoseidon.CLI.OptparseApplicativeParsers
parseCsvParseErrorPoseidon.Janno
parseDebugModePoseidon.CLI.OptparseApplicativeParsers
parseErrorLengthPoseidon.CLI.OptparseApplicativeParsers
parseFetchEntitiesDirectPoseidon.CLI.OptparseApplicativeParsers
parseFetchEntitiesFromFilePoseidon.CLI.OptparseApplicativeParsers
parseFetchEntityInputsPoseidon.CLI.OptparseApplicativeParsers
parseForcePoseidon.CLI.OptparseApplicativeParsers
parseForgeEntitiesDirectPoseidon.CLI.OptparseApplicativeParsers
parseForgeEntitiesFromFilePoseidon.CLI.OptparseApplicativeParsers
parseForgeEntityInputsPoseidon.CLI.OptparseApplicativeParsers
parseForgeOutModePoseidon.CLI.OptparseApplicativeParsers
parseFullGenoPoseidon.CLI.OptparseApplicativeParsers
parseGenoDataSourcePoseidon.CLI.OptparseApplicativeParsers
parseGenoDataSourcesPoseidon.CLI.OptparseApplicativeParsers
parseGenotypeSNPSetPoseidon.CLI.OptparseApplicativeParsers
parseIgnoreChecksumsPoseidon.CLI.OptparseApplicativeParsers
parseIgnoreDuplicatesPoseidon.CLI.OptparseApplicativeParsers
parseIgnoreGenoPoseidon.CLI.OptparseApplicativeParsers
parseIgnorePoseidonVersionPoseidon.CLI.OptparseApplicativeParsers
parseInBibFilePoseidon.CLI.OptparseApplicativeParsers
parseInGenoFilePoseidon.CLI.OptparseApplicativeParsers
parseInGenoOnePoseidon.CLI.OptparseApplicativeParsers
parseInGenoSepPoseidon.CLI.OptparseApplicativeParsers
parseInGenotypeDatasetPoseidon.CLI.OptparseApplicativeParsers
parseInGenotypeFormatPoseidon.CLI.OptparseApplicativeParsers
parseInGenoWithoutSNPSetPoseidon.CLI.OptparseApplicativeParsers
parseInIndFilePoseidon.CLI.OptparseApplicativeParsers
parseInJannoFilePoseidon.CLI.OptparseApplicativeParsers
parseInPoseidonYamlFilePoseidon.CLI.OptparseApplicativeParsers
parseInputPlinkPopModePoseidon.CLI.OptparseApplicativeParsers
parseInSnpFilePoseidon.CLI.OptparseApplicativeParsers
parseInSSFilePoseidon.CLI.OptparseApplicativeParsers
parseIntersectPoseidon.CLI.OptparseApplicativeParsers
parseJannocoalIdStripRegexPoseidon.CLI.OptparseApplicativeParsers
parseJannocoalJannoColumnsPoseidon.CLI.OptparseApplicativeParsers
parseJannocoalOutSpecPoseidon.CLI.OptparseApplicativeParsers
parseJannocoalOverridePoseidon.CLI.OptparseApplicativeParsers
parseJannocoalSourceKeyPoseidon.CLI.OptparseApplicativeParsers
parseJannocoalSourceSpecPoseidon.CLI.OptparseApplicativeParsers
parseJannocoalTargetFilePoseidon.CLI.OptparseApplicativeParsers
parseJannocoalTargetKeyPoseidon.CLI.OptparseApplicativeParsers
parseKeyFilePoseidon.CLI.OptparseApplicativeParsers
parseListEntityPoseidon.CLI.OptparseApplicativeParsers
parseLogPoseidon.CLI.OptparseApplicativeParsers
parseLogModePoseidon.CLI.OptparseApplicativeParsers
parseMaybeArchiveNamePoseidon.CLI.OptparseApplicativeParsers
parseMaybeCertFilesPoseidon.CLI.OptparseApplicativeParsers
parseMaybeContributorsPoseidon.CLI.OptparseApplicativeParsers
parseMaybeLogPoseidon.CLI.OptparseApplicativeParsers
parseMaybeOutPackageNamePoseidon.CLI.OptparseApplicativeParsers
parseMaybeOutPackagePathPoseidon.CLI.OptparseApplicativeParsers
parseMaybePackageVersionUpdatePoseidon.CLI.OptparseApplicativeParsers
parseMaybePoseidonVersionPoseidon.CLI.OptparseApplicativeParsers
parseMaybeSnpFilePoseidon.CLI.OptparseApplicativeParsers
parseMaybeZipDirPoseidon.CLI.OptparseApplicativeParsers
parseMinimalOutputFlagPoseidon.CLI.OptparseApplicativeParsers
parseMinimalOutputSwitchPoseidon.CLI.OptparseApplicativeParsers
parseNoChecksumUpdatePoseidon.CLI.OptparseApplicativeParsers
parseNoExitCodePoseidon.CLI.OptparseApplicativeParsers
parseOnlyLatestPoseidon.CLI.OptparseApplicativeParsers
parseOutGenotypeFormatPoseidon.CLI.OptparseApplicativeParsers
parseOutOnlyGenoFlagPoseidon.CLI.OptparseApplicativeParsers
parseOutOnlyGenoSwitchPoseidon.CLI.OptparseApplicativeParsers
parseOutPackagePathPoseidon.CLI.OptparseApplicativeParsers
parseOutputOrderedPoseidon.CLI.OptparseApplicativeParsers
parseOutputPlinkPopModePoseidon.CLI.OptparseApplicativeParsers
parsePackageWisePoseidon.CLI.OptparseApplicativeParsers
parsePortPoseidon.CLI.OptparseApplicativeParsers
parsePreservePymlFlagPoseidon.CLI.OptparseApplicativeParsers
parseRawOutputPoseidon.CLI.OptparseApplicativeParsers
parseRemoteDummyPoseidon.CLI.OptparseApplicativeParsers
parseRemoteURLPoseidon.CLI.OptparseApplicativeParsers
parseRemoveOldPoseidon.CLI.OptparseApplicativeParsers
parseRepoLocationPoseidon.CLI.OptparseApplicativeParsers
parseTestModePoseidon.CLI.OptparseApplicativeParsers
parseTimetravelChronPathPoseidon.CLI.OptparseApplicativeParsers
parseTimetravelSourcePathPoseidon.CLI.OptparseApplicativeParsers
parseUpgradePoseidon.CLI.OptparseApplicativeParsers
parseValidatePlanPoseidon.CLI.OptparseApplicativeParsers
parseVersionPoseidon.Version
parseVersionComponentPoseidon.CLI.OptparseApplicativeParsers
pastePoseidon.CLI.Summarise
PatchPoseidon.Version
pDescriptionPoseidon.ServerClient
Percent 
1 (Type/Class)Poseidon.Janno
2 (Data Constructor)Poseidon.Janno
pIsLatestPoseidon.ServerClient
pLastModifiedPoseidon.ServerClient
PlinkPopNameAsBothPoseidon.Utils
PlinkPopNameAsFamilyPoseidon.Utils
PlinkPopNameAsPhenotypePoseidon.Utils
PlinkPopNameModePoseidon.Utils
PlusPoseidon.Janno
pNrIndividualsPoseidon.ServerClient
PoseidonBibTeXExceptionPoseidon.Utils, Poseidon.Package
PoseidonCantPreserveExceptionPoseidon.Utils, Poseidon.Package
PoseidonChronicleExceptionPoseidon.Utils, Poseidon.Package
PoseidonCollectionExceptionPoseidon.Utils, Poseidon.Package
PoseidonCrossFileConsistencyExceptionPoseidon.Utils, Poseidon.Package
PoseidonEmptyForgeExceptionPoseidon.Utils, Poseidon.Package
PoseidonEmptyOutPacNameExceptionPoseidon.Utils, Poseidon.Package
PoseidonEntityPoseidon.EntityTypes
PoseidonExceptionPoseidon.Utils, Poseidon.Package
PoseidonFileChecksumExceptionPoseidon.Utils, Poseidon.Package
PoseidonFileConsistencyExceptionPoseidon.Utils, Poseidon.Package
PoseidonFileExistenceExceptionPoseidon.Utils, Poseidon.Package
PoseidonFileRowExceptionPoseidon.Utils, Poseidon.Package
PoseidonForgeEntitiesExceptionPoseidon.Utils, Poseidon.Package
PoseidonFStatsFormatExceptionPoseidon.Utils, Poseidon.Package
PoseidonGenericExceptionPoseidon.Utils, Poseidon.Package
PoseidonGenotypeExceptionPoseidon.Utils, Poseidon.Package
PoseidonGenotypeExceptionForwardPoseidon.Utils, Poseidon.Package
PoseidonGitExceptionPoseidon.Utils, Poseidon.Package
PoseidonHttpExceptionForwardPoseidon.Utils, Poseidon.Package
PoseidonIndSearchExceptionPoseidon.Utils, Poseidon.Package
PoseidonIOPoseidon.Utils
PoseidonNewPackageConstructionExceptionPoseidon.Utils, Poseidon.Package
PoseidonPackage 
1 (Type/Class)Poseidon.Package
2 (Data Constructor)Poseidon.Package
PoseidonPackageChronicle 
1 (Type/Class)Poseidon.Chronicle
2 (Data Constructor)Poseidon.Chronicle
PoseidonPackageExceptionPoseidon.Utils, Poseidon.Package
PoseidonPackageMissingVersionExceptionPoseidon.Utils, Poseidon.Package
PoseidonPackageVersionExceptionPoseidon.Utils, Poseidon.Package
PoseidonPoseidonEntityParsingExceptionPoseidon.Utils, Poseidon.Package
PoseidonRemoteJSONParsingExceptionPoseidon.Utils, Poseidon.Package
PoseidonServerCommunicationExceptionPoseidon.Utils, Poseidon.Package
PoseidonUnequalBaseDirExceptionPoseidon.Utils, Poseidon.Package
PoseidonUnzipExceptionPoseidon.Utils, Poseidon.Package
PoseidonYamlParseExceptionPoseidon.Utils, Poseidon.Package
PoseidonYamlStruct 
1 (Type/Class)Poseidon.Package
2 (Data Constructor)Poseidon.Package
posPacBaseDirPoseidon.Package
posPacBibPoseidon.Package
posPacBibFilePoseidon.Package
posPacBibFileChkSumPoseidon.Package
posPacChangelogFilePoseidon.Package
posPacContributorPoseidon.Package
posPacDescriptionPoseidon.Package
posPacGenotypeDataPoseidon.Package
posPacJannoPoseidon.Package
posPacJannoFilePoseidon.Package
posPacJannoFileChkSumPoseidon.Package
posPacLastModifiedPoseidon.Package
posPacNameAndVersionPoseidon.Package
posPacPoseidonVersionPoseidon.Package
posPacReadmeFilePoseidon.Package
posPacSeqSourcePoseidon.Package
posPacSeqSourceFilePoseidon.Package
posPacSeqSourceFileChkSumPoseidon.Package
pPacPoseidon.ServerClient
pPosVersionPoseidon.ServerClient
PresenceCountablePoseidon.CLI.Survey
preservePymlPoseidon.CLI.Forge
PreservePymlOutPoseidon.CLI.Forge
printDownloadProgressPoseidon.CLI.Fetch
printFrequencyPoseidon.CLI.Summarise
printFrequencyMaybePoseidon.CLI.Summarise
printFrequencyMaybeStringPoseidon.CLI.Summarise
printFrequencyStringPoseidon.CLI.Summarise
printSNPCopyProgressPoseidon.GenotypeData
printVPoseidon.CLI.Fetch
printVsPoseidon.CLI.Fetch
processApiResponsePoseidon.ServerClient
ProductionPoseidon.Utils
qArchivePoseidon.ServerClient
qDefaultPoseidon.ServerClient
qPacVersionPoseidon.ServerClient
readBibTeXFilePoseidon.BibFile
readChroniclePoseidon.Chronicle
readContributorStringPoseidon.CLI.OptparseApplicativeParsers
readEntitiesFromFilePoseidon.EntityTypes
readEntitiesFromStringPoseidon.EntityTypes
readEntityInputsPoseidon.EntityTypes
readJannoFilePoseidon.Janno
readPlinkPopNamePoseidon.CLI.OptparseApplicativeParsers
readPoseidonPackagePoseidon.Package
readPoseidonPackageCollectionPoseidon.Package
readPoseidonPackageCollectionWithSkipIndicatorPoseidon.Package
readSeqSourceFilePoseidon.SequencingSource
readSeqSourceFileRowPoseidon.SequencingSource
readServerIndInfoPoseidon.CLI.Fetch
readServerPackageInfoPoseidon.CLI.Fetch
recodeAllelesPoseidon.GenotypeData
RectifyOptions 
1 (Type/Class)Poseidon.CLI.Rectify
2 (Data Constructor)Poseidon.CLI.Rectify
ReferenceGenomePoseidon.Janno
RelationDegreePoseidon.Janno
removeUselessSuffixPoseidon.Janno
renderCsvParseErrorPoseidon.Janno
renderJannoCompletenessPoseidon.CLI.Survey
renderMismatchPoseidon.Package
renderNameWithVersionPoseidon.EntityTypes
renderPackageWithCompletenessPoseidon.CLI.Survey
renderPoseidonExceptionPoseidon.Utils
RepoLocalPoseidon.CLI.List
RepoLocationSpecPoseidon.CLI.List
RepoRemotePoseidon.CLI.List
reportDuplicateIndividualsPoseidon.EntityTypes
resolveEntityIndicesPoseidon.EntityTypes
resolveUniqueEntityIndicesPoseidon.EntityTypes
roundToPoseidon.MathHelpers
roundToStrPoseidon.MathHelpers
runChroniclePoseidon.CLI.Chronicle
runFetchPoseidon.CLI.Fetch
runForgePoseidon.CLI.Forge
runGenoconvertPoseidon.CLI.Genoconvert
runInitPoseidon.CLI.Init
runJannocoalescePoseidon.CLI.Jannocoalesce
runListPoseidon.CLI.List
runRectifyPoseidon.CLI.Rectify
runServerPoseidon.CLI.Serve
runServerMainThreadPoseidon.CLI.Serve
runSummarisePoseidon.CLI.Summarise
runSurveyPoseidon.CLI.Survey
runTimetravelPoseidon.CLI.Timetravel
runValidatePoseidon.CLI.Validate
sAdditionalColumnsPoseidon.SequencingSource
SecondPoseidon.Janno
selectIndicesPoseidon.GenotypeData
seqSourceHeaderPoseidon.SequencingSource
seqSourceHeaderStringPoseidon.SequencingSource
seqSourceRefHashMapPoseidon.SequencingSource
SeqSourceRow 
1 (Type/Class)Poseidon.SequencingSource
2 (Data Constructor)Poseidon.SequencingSource
SeqSourceRows 
1 (Type/Class)Poseidon.SequencingSource
2 (Data Constructor)Poseidon.SequencingSource
ServeOptions 
1 (Type/Class)Poseidon.CLI.Serve
2 (Data Constructor)Poseidon.CLI.Serve
ServerApiReturnType 
1 (Type/Class)Poseidon.ServerClient
2 (Data Constructor)Poseidon.ServerClient
ServerLogPoseidon.Utils
SexPoseidon.Janno
sFastqASPERAPoseidon.SequencingSource
sFastqBytesPoseidon.SequencingSource
sFastqFTPPoseidon.SequencingSource
sFastqMD5Poseidon.SequencingSource
sFirstPublicPoseidon.SequencingSource
sfSexPoseidon.Janno
ShotgunPoseidon.Janno
showParsecErrPoseidon.Utils
showPoseidonVersionPoseidon.PoseidonVersion
SignedEntitiesListPoseidon.EntityTypes
SignedEntityPoseidon.EntityTypes
SimpleDate 
1 (Type/Class)Poseidon.SequencingSource
2 (Data Constructor)Poseidon.SequencingSource
SimpleLogPoseidon.Utils
sInstrumentModelPoseidon.SequencingSource
sInstrumentPlatformPoseidon.SequencingSource
SixthToTenthPoseidon.Janno
sLastUpdatedPoseidon.SequencingSource
sLibraryBuiltPoseidon.SequencingSource
sLibraryLayoutPoseidon.SequencingSource
sLibraryNamePoseidon.SequencingSource
sLibrarySourcePoseidon.SequencingSource
sLibraryStrategyPoseidon.SequencingSource
snapYamlChronicleVersionPoseidon.Chronicle
snapYamlDescriptionPoseidon.Chronicle
snapYamlLastModifiedPoseidon.Chronicle
snapYamlPackagesPoseidon.Chronicle
snapYamlTitlePoseidon.Chronicle
snpFilePoseidon.GenotypeData
snpFileChkSumPoseidon.GenotypeData
snpSetPoseidon.GenotypeData
SNPSet1240KPoseidon.GenotypeData
SNPSetHumanOriginsPoseidon.GenotypeData
snpSetMergePoseidon.GenotypeData
snpSetMergeListPoseidon.GenotypeData
SNPSetOtherPoseidon.GenotypeData
SNPSetSpecPoseidon.GenotypeData
sortTupelsBySndDescPoseidon.CLI.Summarise
SpecificIndPoseidon.EntityTypes
sPoseidonIDPoseidon.SequencingSource
sReadCountPoseidon.SequencingSource
sRunAccessionPoseidon.SequencingSource
SSPoseidon.Janno
sSampleAccessionPoseidon.SequencingSource
sSampleAliasPoseidon.SequencingSource
sSecondarySampleAccessionPoseidon.SequencingSource
SSFDSPoseidon.SequencingSource
SSFHalfPoseidon.SequencingSource
SSFLibraryBuiltPoseidon.SequencingSource
SSFMinusPoseidon.SequencingSource
SSFPlusPoseidon.SequencingSource
SSFSSPoseidon.SequencingSource
SSFUDGPoseidon.SequencingSource
sStudyAccessionPoseidon.SequencingSource
sSubmittedFTPPoseidon.SequencingSource
stdevPoseidon.MathHelpers
sUDGPoseidon.SequencingSource
summariseJannoRowsPoseidon.CLI.Summarise
SummariseOptions 
1 (Type/Class)Poseidon.CLI.Summarise
2 (Data Constructor)Poseidon.CLI.Summarise
sumNonMissingSNPsPoseidon.CLI.Forge
SurveyOptions 
1 (Type/Class)Poseidon.CLI.Survey
2 (Data Constructor)Poseidon.CLI.Survey
TestingPoseidon.Utils
testLogPoseidon.Utils
TestModePoseidon.Utils
ThirdToFifthPoseidon.Janno
TimetravelOptions 
1 (Type/Class)Poseidon.CLI.Timetravel
2 (Data Constructor)Poseidon.CLI.Timetravel
TwistAncientDNAPoseidon.Janno
underlyingEntityPoseidon.EntityTypes
UnequalLocalRemotePoseidon.CLI.Fetch
uniqueNumberPoseidon.CLI.Summarise
uniquePOPoseidon.Utils
uniqueROPoseidon.Utils
UnknownPoseidon.Janno
UnrelatedPoseidon.Janno
unzipPackagePoseidon.CLI.Fetch
UpdateChronPoseidon.CLI.Chronicle
updateChroniclePoseidon.Chronicle
updateThreeComponentVersionPoseidon.Version
usePoseidonLoggerPoseidon.Utils
validateGenoPoseidon.Package
ValidateOptions 
1 (Type/Class)Poseidon.CLI.Validate
2 (Data Constructor)Poseidon.CLI.Validate
ValidatePlanPoseidon.CLI.Validate
validPoseidonVersionsPoseidon.PoseidonVersion
ValPlanBaseDirsPoseidon.CLI.Validate
ValPlanBibPoseidon.CLI.Validate
ValPlanGenoPoseidon.CLI.Validate
ValPlanJannoPoseidon.CLI.Validate
ValPlanPoseidonYamlPoseidon.CLI.Validate
ValPlanSSFPoseidon.CLI.Validate
VerboseLogPoseidon.Utils
VersionComponentPoseidon.Version
warnSeqSourceConsistencyPoseidon.SequencingSource
writeBibTeXFilePoseidon.BibFile
writeChroniclePoseidon.Chronicle
writeJannoFilePoseidon.Janno
writePoseidonPackagePoseidon.Package
writeSeqSourceFilePoseidon.SequencingSource
zipWithPaddingPoseidon.Package
_aeArchiveNamePoseidon.ServerClient
_aeServerURLPoseidon.ServerClient
_apiMessagesPoseidon.ServerClient
_apiResponsePoseidon.ServerClient
_archiveEndPoseidon.CLI.Fetch
_chronicleBaseDirsPoseidon.CLI.Chronicle
_chronicleOperationPoseidon.CLI.Chronicle
_entityInputPoseidon.CLI.Fetch
_envErrorLengthPoseidon.Utils
_envInputPlinkModePoseidon.Utils
_envLogActionPoseidon.Utils
_envTestModePoseidon.Utils
_forgeEntityInputPoseidon.CLI.Forge
_forgeGenoSourcesPoseidon.CLI.Forge
_forgeIntersectPoseidon.CLI.Forge
_forgeOutFormatPoseidon.CLI.Forge
_forgeOutModePoseidon.CLI.Forge
_forgeOutPacNamePoseidon.CLI.Forge
_forgeOutPacPathPoseidon.CLI.Forge
_forgeOutputOrderedPoseidon.CLI.Forge
_forgeOutputPlinkPopModePoseidon.CLI.Forge
_forgePackageWisePoseidon.CLI.Forge
_forgeSnpFilePoseidon.CLI.Forge
_genoconvertGenoSourcesPoseidon.CLI.Genoconvert
_genoconvertOnlyLatestPoseidon.CLI.Genoconvert
_genoConvertOutFormatPoseidon.CLI.Genoconvert
_genoConvertOutOnlyGenoPoseidon.CLI.Genoconvert
_genoconvertOutPlinkPopModePoseidon.CLI.Genoconvert
_genoconvertRemoveOldPoseidon.CLI.Genoconvert
_genoMaybeOutPackagePathPoseidon.CLI.Genoconvert
_initGenoDataPoseidon.CLI.Init
_initMinimalPoseidon.CLI.Init
_initPacNamePoseidon.CLI.Init
_initPacPathPoseidon.CLI.Init
_jaBaseDirsPoseidon.CLI.Fetch
_jannocoalesceIdStripPoseidon.CLI.Jannocoalesce
_jannocoalesceJannoColumnsPoseidon.CLI.Jannocoalesce
_jannocoalesceOutSpecPoseidon.CLI.Jannocoalesce
_jannocoalesceOverwriteColumnsPoseidon.CLI.Jannocoalesce
_jannocoalesceSourcePoseidon.CLI.Jannocoalesce
_jannocoalesceSourceKeyPoseidon.CLI.Jannocoalesce
_jannocoalesceTargetPoseidon.CLI.Jannocoalesce
_jannocoalesceTargetKeyPoseidon.CLI.Jannocoalesce
_listListEntityPoseidon.CLI.List
_listOnlyLatestPoseidon.CLI.List
_listRawOutputPoseidon.CLI.List
_listRepoLocationPoseidon.CLI.List
_orcidChecksumPoseidon.Contributor
_orcidNumsPoseidon.Contributor
_pacVerUpLogPoseidon.CLI.Rectify
_pacVerUpVersionComponentPoseidon.CLI.Rectify
_posYamlBibFilePoseidon.Package
_posYamlBibFileChkSumPoseidon.Package
_posYamlChangelogFilePoseidon.Package
_posYamlContributorPoseidon.Package
_posYamlDescriptionPoseidon.Package
_posYamlGenotypeDataPoseidon.Package
_posYamlJannoFilePoseidon.Package
_posYamlJannoFileChkSumPoseidon.Package
_posYamlLastModifiedPoseidon.Package
_posYamlPackageVersionPoseidon.Package
_posYamlPoseidonVersionPoseidon.Package
_posYamlReadmeFilePoseidon.Package
_posYamlSeqSourceFilePoseidon.Package
_posYamlSeqSourceFileChkSumPoseidon.Package
_posYamlTitlePoseidon.Package
_readOptFullGenoPoseidon.Package
_readOptGenoCheckPoseidon.Package
_readOptIgnoreChecksumsPoseidon.Package
_readOptIgnoreGenoPoseidon.Package
_readOptIgnorePosVersionPoseidon.Package
_readOptOnlyLatestPoseidon.Package
_rectifyBaseDirsPoseidon.CLI.Rectify
_rectifyChecksumBibPoseidon.CLI.Rectify
_rectifyChecksumGenoPoseidon.CLI.Rectify
_rectifyChecksumJannoPoseidon.CLI.Rectify
_rectifyChecksumsPoseidon.CLI.Rectify
_rectifyChecksumSSFPoseidon.CLI.Rectify
_rectifyIgnorePoseidonVersionPoseidon.CLI.Rectify
_rectifyNewContributorsPoseidon.CLI.Rectify
_rectifyOnlyLatestPoseidon.CLI.Rectify
_rectifyPackageVersionUpdatePoseidon.CLI.Rectify
_rectifyPoseidonVersionPoseidon.CLI.Rectify
_summariseBaseDirsPoseidon.CLI.Summarise
_summariseRawOutputPoseidon.CLI.Summarise
_surveyBaseDirsPoseidon.CLI.Survey
_surveyOnlyLatestPoseidon.CLI.Survey
_surveyRawOutputPoseidon.CLI.Survey
_timetravelBaseDirsPoseidon.CLI.Timetravel
_timetravelChronicleFilePoseidon.CLI.Timetravel
_timetravelSourceDirPoseidon.CLI.Timetravel
_validateNoExitCodePoseidon.CLI.Validate
_validateOnlyLatestPoseidon.CLI.Validate
_validatePlanPoseidon.CLI.Validate
_valPlanBaseDirsPoseidon.CLI.Validate
_valPlanFullGenoPoseidon.CLI.Validate
_valPlanIgnoreChecksumsPoseidon.CLI.Validate
_valPlanIgnoreDuplicatesPoseidon.CLI.Validate
_valPlanIgnoreGenoPoseidon.CLI.Validate
_valPlanIgnorePosVersionPoseidon.CLI.Validate