Download phg.jar - @net.maizegenetics

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Latest Version
All Versions
View Java Class Source Code in JAR file

Latest Version

Download net.maizegenetics : phg JAR file - Latest Versions:

Latest Stable: 1.6.jar

All Versions

Download net.maizegenetics : phg JAR file - All Versions:

Version	Vulnerabilities	Size	Updated
1.6	phg-1.6.jar		2.04 MB	Jul 11, 2023
1.5	phg-1.5.jar		2.04 MB	May 19, 2023
1.4	phg-1.4.jar		1.89 MB	Mar 14, 2023
1.3	phg-1.3.jar		1.88 MB	Jan 10, 2023
1.2	phg-1.2.jar		1.76 MB	Oct 11, 2022
1.1	phg-1.1.jar		1.76 MB	Sep 22, 2022
1.0	phg-1.0.jar		1.76 MB	Aug 30, 2022
0.0.x	phg-0.0.40.jar		1.80 MB	Aug 04, 2022
phg-0.0.39.jar		1.79 MB	Jun 17, 2022
phg-0.0.38.jar		1.79 MB	Apr 08, 2022
phg-0.0.37.jar		1.72 MB	Feb 17, 2022
phg-0.0.36.jar		1.68 MB	Jan 19, 2022
phg-0.0.35.jar		1.60 MB	Nov 16, 2021
phg-0.0.34.jar		1.57 MB	Oct 27, 2021
phg-0.0.33.jar		1.57 MB	Oct 26, 2021
phg-0.0.32.jar		1.56 MB	Oct 04, 2021
phg-0.0.31.jar		1.54 MB	Sep 10, 2021
phg-0.0.30.jar		1.52 MB	Jun 23, 2021
phg-0.0.29.jar		1.48 MB	Apr 08, 2021
phg-0.0.28.jar		1.48 MB	Mar 26, 2021
phg-0.0.27.jar		1.44 MB	Feb 10, 2021
phg-0.0.26.jar		1.40 MB	Jan 14, 2021
phg-0.0.25.jar		1.40 MB	Jan 07, 2021
phg-0.0.24.jar		1.37 MB	Nov 10, 2020
phg-0.0.23.jar		1.37 MB	Oct 29, 2020
phg-0.0.22.jar		1.35 MB	Sep 10, 2020
phg-0.0.21.jar		1.31 MB	Jul 09, 2020
phg-0.0.20.jar		1.28 MB	Jun 15, 2020
phg-0.0.19.jar		1.28 MB	Jun 02, 2020
phg-0.0.18.jar		1.25 MB	May 07, 2020
phg-0.0.17.jar		1.19 MB	Feb 20, 2020
phg-0.0.16.jar		1.08 MB	Dec 12, 2019
phg-0.0.15.jar		1.08 MB	Nov 13, 2019
phg-0.0.14.jar		1.07 MB	Oct 10, 2019
phg-0.0.13.jar		1 MB	Sep 17, 2019
phg-0.0.12.jar		1 MB	Sep 10, 2019
phg-0.0.11.jar		978.16 KB	Jul 25, 2019
phg-0.0.10.jar		949.13 KB	Jun 27, 2019
phg-0.0.9.jar		931.88 KB	Apr 04, 2019
phg-0.0.8.jar		874.99 KB	Mar 21, 2019
phg-0.0.7.jar		839.90 KB	Dec 20, 2018
phg-0.0.6.jar		815.44 KB	Oct 25, 2018
phg-0.0.5.jar		765.53 KB	Oct 05, 2018
phg-0.0.4.jar		813.63 KB	Aug 31, 2018
phg-0.0.2.jar		790.33 KB	Jul 26, 2018
phg-0.0.1.jar		782.45 KB	Jul 19, 2018

Version

Vulnerabilities

Size

Updated

1.6

phg-1.6.jar

2.04 MB

Jul 11, 2023

1.5

phg-1.5.jar

2.04 MB

May 19, 2023

1.4

phg-1.4.jar

1.89 MB

Mar 14, 2023

1.3

phg-1.3.jar

1.88 MB

Jan 10, 2023

1.2

phg-1.2.jar

1.76 MB

Oct 11, 2022

1.1

phg-1.1.jar

1.76 MB

Sep 22, 2022

1.0

phg-1.0.jar

1.76 MB

Aug 30, 2022

0.0.x

phg-0.0.40.jar

1.80 MB

Aug 04, 2022

phg-0.0.39.jar

1.79 MB

Jun 17, 2022

phg-0.0.38.jar

1.79 MB

Apr 08, 2022

phg-0.0.37.jar

1.72 MB

Feb 17, 2022

phg-0.0.36.jar

1.68 MB

Jan 19, 2022

phg-0.0.35.jar

1.60 MB

Nov 16, 2021

phg-0.0.34.jar

1.57 MB

Oct 27, 2021

phg-0.0.33.jar

1.57 MB

Oct 26, 2021

phg-0.0.32.jar

1.56 MB

Oct 04, 2021

phg-0.0.31.jar

1.54 MB

Sep 10, 2021

phg-0.0.30.jar

1.52 MB

Jun 23, 2021

phg-0.0.29.jar

1.48 MB

Apr 08, 2021

phg-0.0.28.jar

1.48 MB

Mar 26, 2021

phg-0.0.27.jar

1.44 MB

Feb 10, 2021

phg-0.0.26.jar

1.40 MB

Jan 14, 2021

phg-0.0.25.jar

1.40 MB

Jan 07, 2021

phg-0.0.24.jar

1.37 MB

Nov 10, 2020

phg-0.0.23.jar

1.37 MB

Oct 29, 2020

phg-0.0.22.jar

1.35 MB

Sep 10, 2020

phg-0.0.21.jar

1.31 MB

Jul 09, 2020

phg-0.0.20.jar

1.28 MB

Jun 15, 2020

phg-0.0.19.jar

1.28 MB

Jun 02, 2020

phg-0.0.18.jar

1.25 MB

May 07, 2020

phg-0.0.17.jar

1.19 MB

Feb 20, 2020

phg-0.0.16.jar

1.08 MB

Dec 12, 2019

phg-0.0.15.jar

1.08 MB

Nov 13, 2019

phg-0.0.14.jar

1.07 MB

Oct 10, 2019

phg-0.0.13.jar

1 MB

Sep 17, 2019

phg-0.0.12.jar

1 MB

Sep 10, 2019

phg-0.0.11.jar

978.16 KB

Jul 25, 2019

phg-0.0.10.jar

949.13 KB

Jun 27, 2019

phg-0.0.9.jar

931.88 KB

Apr 04, 2019

phg-0.0.8.jar

874.99 KB

Mar 21, 2019

phg-0.0.7.jar

839.90 KB

Dec 20, 2018

phg-0.0.6.jar

815.44 KB

Oct 25, 2018

phg-0.0.5.jar

765.53 KB

Oct 05, 2018

phg-0.0.4.jar

813.63 KB

Aug 31, 2018

phg-0.0.2.jar

790.33 KB

Jul 26, 2018

phg-0.0.1.jar

782.45 KB

Jul 19, 2018

View Java Class Source Code in JAR file

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Click menu "File → Open File..." or just drag-and-drop the JAR file in the JD-GUI window phg-1.6.jar file.
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net.maizegenetics.pangenome.pipelineTests

├─ net.maizegenetics.pangenome.pipelineTests.CompareToKnownSNPPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.pipelineTests.ContrastHaplotypeAndAssemblySequence.class - [JAR]

├─ net.maizegenetics.pangenome.pipelineTests.CountNsInRawHapSequencesPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.pipelineTests.EvaluateHaplotypeFastaInKnownIBDRegions.class - [JAR]

├─ net.maizegenetics.pangenome.pipelineTests.FindProteomeGenesInAssembly.class - [JAR]

├─ net.maizegenetics.pangenome.pipelineTests.GenerateRForPHG.class - [JAR]

├─ net.maizegenetics.pangenome.pipelineTests.HaplotypesDataMetricsPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.pipelineTests.HaplotypesDataVectors.class - [JAR]

├─ net.maizegenetics.pangenome.pipelineTests.RefRangeVectors.class - [JAR]

net.maizegenetics.pangenome.hapCalling

├─ net.maizegenetics.pangenome.hapCalling.BestAlignmentGroup.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.BestHaplotypePathPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.BestHaplotypePathPluginKt.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.ConvertRampSeqTagsToMapPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.ConvertReadsToPathUsingHMM.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.CreateHapIdMapsPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.CreateHapIdMapsPluginKt.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.DiploidCountsToPath.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.DiploidEmissionProbability.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.DiploidPathPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.DiploidTransitionProbability.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.DiploidTransitionProbabilityWithInbreeding.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.ExportHaplotypePathToFilePlugin.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.ExportVCForTaxonMethodPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.FastqDirToMappingPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.FastqDirToMappingPluginKt.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.FastqToHapCountMinimapPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.FastqToHapCountMinimapPluginKt.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.FastqToKmerCountPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.FastqToMappingPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.FastqToMappingPluginKt.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.FastqcolToFastaConverter.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.FastqcolToFastaPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.FastqcolToFastaPluginKt.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.FilterBAMAndGetStatsPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.FilterBAMAndGetStatsPluginKt.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.FilterFastqUsingBAMPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.FindBestDiploidPathKt.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.GetHapIdsForTaxonPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.GraphIdMaps.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.GraphIdMapsKt.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.HapCallingUtils.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.HapCountBestPathPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.HapCountBestPathToTextPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.HapIdMultiset.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.HapIdSetCount.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.HapIdStats.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.ImportDiploidPathPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.ImportHaplotypePathFilePlugin.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.ImportReadMappingToDBPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.ImportReadMappingToDBPluginKt.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.IndexHaplotypeKmersPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.IndexHaplotypesBySNPPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.IndexHaplotypesBySNPPluginKt.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.IndexKmerByHammingPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.KeyFileUniqueRecord.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.KmerMap.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.KmerMapType.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.KmerToRefRangeIdToPurgeArray.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.KmerUtils.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.LikelyParentsPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.MergeFastqPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.MergeFastqPluginKt.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.Minimap2Utils.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.MostLikelyParents.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.MultisampleBAMToMappingPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.MultisampleBAMToMappingPluginKt.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.MutableKmerCounter.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.MutableKmerToIdMap.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.PathFinderForSingleTaxonNodes.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.PathFinderForSingleTaxonNodesFactory.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.PathToIgraphPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.PathsToVCFHaplotypesPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.PathsToVCFPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.PositionToRefAndAltHaplotypes.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.ReadMappingDecoder.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.ReadMappingInputFileFormat.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.ReadMappingKeyFileParsed.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.ReadMappingUtils.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.RefRangeWrapper.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.SAMMetricsPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.SAMMetricsPluginKt.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.SAMToMappingPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.SAMToMappingPluginKt.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.SNPToReadMappingPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.SNPToReadMappingPluginKt.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.ScoreRangesByInclusionCountsPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.SecondaryStats.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.SimulatedReadsPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.SingleHapMapping.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.SplitKeyFilePlugin.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.SplitKeyFilePluginKt.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.VCFMetricsPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.VCFMetricsPluginKt.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.VerifyPathsPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.VerifyPathsPluginKt.class - [JAR]

├─ net.maizegenetics.pangenome.hapCalling.ViterbiForDiploidPath.class - [JAR]

net.maizegenetics.pangenome.annotations

├─ net.maizegenetics.pangenome.annotations.GFFUtilsKt.class - [JAR]

├─ net.maizegenetics.pangenome.annotations.PathToGFFPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.annotations.PathToGFFPluginKt.class - [JAR]

net.maizegenetics.pangenome.db_loading

├─ net.maizegenetics.pangenome.db_loading.AddRefRangeAsAssemblyPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.db_loading.AddRefRangeGroupPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.db_loading.AddTaxaToTaxaGroupPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.db_loading.AddTaxaToTaxaGroupPluginKt.class - [JAR]

├─ net.maizegenetics.pangenome.db_loading.AnchorDataPHG.class - [JAR]

├─ net.maizegenetics.pangenome.db_loading.ChangeDBMethodTypePlugin.class - [JAR]

├─ net.maizegenetics.pangenome.db_loading.ChangeDBMethodTypePluginKt.class - [JAR]

├─ net.maizegenetics.pangenome.db_loading.CloseDBConnectionPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.db_loading.CreateAnchorFilesFromGeneGFF.class - [JAR]

├─ net.maizegenetics.pangenome.db_loading.CreateBiggerIntervals.class - [JAR]

├─ net.maizegenetics.pangenome.db_loading.CreateCSV_TrimmedAnchorLoading.class - [JAR]

├─ net.maizegenetics.pangenome.db_loading.CreateGeneIntervalsFromConservedGFFPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.db_loading.CreateIntervalBedFilesPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.db_loading.CreateIntervalsFile.class - [JAR]

├─ net.maizegenetics.pangenome.db_loading.CreateIntervalsFileFromGffPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.db_loading.CreatePHGPostgresDockerPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.db_loading.CreateValidIntervalsFilePlugin.class - [JAR]

├─ net.maizegenetics.pangenome.db_loading.CreateValidIntervalsFilePluginKt.class - [JAR]

├─ net.maizegenetics.pangenome.db_loading.DBLoadingUtils.class - [JAR]

├─ net.maizegenetics.pangenome.db_loading.DatabaseSummaryPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.db_loading.FindTrimmedAnchorCoordinates.class - [JAR]

├─ net.maizegenetics.pangenome.db_loading.FindTrimmedAssemblyCoordinates.class - [JAR]

├─ net.maizegenetics.pangenome.db_loading.GZipCompression.class - [JAR]

├─ net.maizegenetics.pangenome.db_loading.GeneGFFData.class - [JAR]

├─ net.maizegenetics.pangenome.db_loading.GenoHaploData.class - [JAR]

├─ net.maizegenetics.pangenome.db_loading.GetDBConnectionPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.db_loading.HaplotypeGeneMetricsPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.db_loading.HaplotypeGeneMetricsPluginKt.class - [JAR]

├─ net.maizegenetics.pangenome.db_loading.LoadAllIntervalsToPHGdbPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.db_loading.LoadAllIntervalsToPHGdbPluginKt.class - [JAR]

├─ net.maizegenetics.pangenome.db_loading.LoadHaplotypesFromGVCFPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.db_loading.LoadHaplotypesFromGVCFPluginKt.class - [JAR]

├─ net.maizegenetics.pangenome.db_loading.PHGData.class - [JAR]

├─ net.maizegenetics.pangenome.db_loading.PHGDataWriter.class - [JAR]

├─ net.maizegenetics.pangenome.db_loading.PHGdbAccess.class - [JAR]

├─ net.maizegenetics.pangenome.db_loading.ReadMappingDBRecord.class - [JAR]

├─ net.maizegenetics.pangenome.db_loading.ShellScript_createLoadHaplotypes.class - [JAR]

├─ net.maizegenetics.pangenome.db_loading.SplitFastaByChromPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.db_loading.TestPHGStuff.class - [JAR]

├─ net.maizegenetics.pangenome.db_loading.VCFFile.class - [JAR]

├─ net.maizegenetics.pangenome.db_loading.VariantLoadingUtilsKt.class - [JAR]

├─ net.maizegenetics.pangenome.db_loading.VariantMappingData.class - [JAR]

├─ net.maizegenetics.pangenome.db_loading.VariantsProcessingUtils.class - [JAR]

net.maizegenetics.pangenome.pipeline

├─ net.maizegenetics.pangenome.pipeline.BuildSLURMBatchScriptPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.pipeline.BuildSLURMBatchScriptPluginKt.class - [JAR]

├─ net.maizegenetics.pangenome.pipeline.ComparatorTriple.class - [JAR]

├─ net.maizegenetics.pangenome.pipeline.CreateRefRangeUtils.class - [JAR]

├─ net.maizegenetics.pangenome.pipeline.CreateRefRangesPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.pipeline.CreateRefRangesPluginKt.class - [JAR]

├─ net.maizegenetics.pangenome.pipeline.GFFType.class - [JAR]

├─ net.maizegenetics.pangenome.pipeline.ImputePipelinePlugin.class - [JAR]

├─ net.maizegenetics.pangenome.pipeline.ImputePipelinePluginKt.class - [JAR]

├─ net.maizegenetics.pangenome.pipeline.LiquibaseCommandPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.pipeline.LiquibaseCommandPluginKt.class - [JAR]

├─ net.maizegenetics.pangenome.pipeline.MakeDefaultDirectoryPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.pipeline.MakeDefaultDirectoryPluginKt.class - [JAR]

├─ net.maizegenetics.pangenome.pipeline.MakeInitialPHGDBPipelinePlugin.class - [JAR]

├─ net.maizegenetics.pangenome.pipeline.MakeInitialPHGDBPipelinePluginKt.class - [JAR]

├─ net.maizegenetics.pangenome.pipeline.PipelineUtilsKt.class - [JAR]

├─ net.maizegenetics.pangenome.pipeline.PopulatePHGDBPipelinePlugin.class - [JAR]

├─ net.maizegenetics.pangenome.pipeline.PopulatePHGDBPipelinePluginKt.class - [JAR]

├─ net.maizegenetics.pangenome.pipeline.SAMAlignmentMetricsPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.pipeline.SAMAlignmentMetricsPluginKt.class - [JAR]

net.maizegenetics.pangenome

├─ net.maizegenetics.pangenome.CompareFastaToReference.class - [JAR]

├─ net.maizegenetics.pangenome.CompareHaplotypesToAssembly.class - [JAR]

├─ net.maizegenetics.pangenome.ConvertToHaplotypeCallerInput.class - [JAR]

├─ net.maizegenetics.pangenome.GVCFStats.class - [JAR]

├─ net.maizegenetics.pangenome.GenerateHaplotypeCallerScripts.class - [JAR]

├─ net.maizegenetics.pangenome.GetFastaSequenceLengths.class - [JAR]

net.maizegenetics.pangenome.utils

├─ net.maizegenetics.pangenome.utils.CreateHashForFiles.class - [JAR]

├─ net.maizegenetics.pangenome.utils.TaxaByNodeByRangePlugin.class - [JAR]

net.maizegenetics.pangenome.gui

├─ net.maizegenetics.pangenome.gui.CreateStreamGraph.class - [JAR]

├─ net.maizegenetics.pangenome.gui.ViewGraphPlugin.class - [JAR]

net.maizegenetics.pangenome.gvcfFiltering

├─ net.maizegenetics.pangenome.gvcfFiltering.ComputeMedianAnnotation.class - [JAR]

├─ net.maizegenetics.pangenome.gvcfFiltering.ComputeMedianGVCFAndFilter.class - [JAR]

├─ net.maizegenetics.pangenome.gvcfFiltering.FilterGVCFPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.gvcfFiltering.FilterGVCFSingleFilePlugin.class - [JAR]

├─ net.maizegenetics.pangenome.gvcfFiltering.SplitVCFIntoIntervalsPlugin.class - [JAR]

net.maizegenetics.pangenome.io

├─ net.maizegenetics.pangenome.io.FastaBgZipIO.class - [JAR]

├─ net.maizegenetics.pangenome.io.FastaIO.class - [JAR]

├─ net.maizegenetics.pangenome.io.GVCFIDToFileProtoKt.class - [JAR]

├─ net.maizegenetics.pangenome.io.GVCFIDToFileProtoKtKt.class - [JAR]

├─ net.maizegenetics.pangenome.io.HaplotypeEdgeProtoKt.class - [JAR]

├─ net.maizegenetics.pangenome.io.HaplotypeEdgeProtoKtKt.class - [JAR]

├─ net.maizegenetics.pangenome.io.HaplotypeGraphProtoKt.class - [JAR]

├─ net.maizegenetics.pangenome.io.HaplotypeGraphProtoKtKt.class - [JAR]

├─ net.maizegenetics.pangenome.io.HaplotypeGraphProtobufIO.class - [JAR]

├─ net.maizegenetics.pangenome.io.HaplotypeGraphProtobufPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.io.HaplotypeNodeProtoKt.class - [JAR]

├─ net.maizegenetics.pangenome.io.HaplotypeNodeProtoKtKt.class - [JAR]

├─ net.maizegenetics.pangenome.io.HaplotypeSequenceProtoKt.class - [JAR]

├─ net.maizegenetics.pangenome.io.HaplotypeSequenceProtoKtKt.class - [JAR]

├─ net.maizegenetics.pangenome.io.Haplotypegraph.class - [JAR]

├─ net.maizegenetics.pangenome.io.PHGtoGFAv1Plugin.class - [JAR]

├─ net.maizegenetics.pangenome.io.PathsToFastaPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.io.ReferenceRangeProtoKt.class - [JAR]

├─ net.maizegenetics.pangenome.io.ReferenceRangeProtoKtKt.class - [JAR]

├─ net.maizegenetics.pangenome.io.SFTPConnection.class - [JAR]

net.maizegenetics.pangenome.api

├─ net.maizegenetics.pangenome.api.ASMVariantInfo.class - [JAR]

├─ net.maizegenetics.pangenome.api.AddPathsToGraphPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.api.AddPathsToGraphPluginKt.class - [JAR]

├─ net.maizegenetics.pangenome.api.AlleleInfo.class - [JAR]

├─ net.maizegenetics.pangenome.api.BuildGraphFromPathsPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.api.ConvertVariantContextToVariantInfo.class - [JAR]

├─ net.maizegenetics.pangenome.api.CreateGraphUtils.class - [JAR]

├─ net.maizegenetics.pangenome.api.CreateHaplotypeNodeListFromFasta.class - [JAR]

├─ net.maizegenetics.pangenome.api.CreateTestGraphKt.class - [JAR]

├─ net.maizegenetics.pangenome.api.DBVariant.class - [JAR]

├─ net.maizegenetics.pangenome.api.ExportGFAKt.class - [JAR]

├─ net.maizegenetics.pangenome.api.FilterGraphPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.api.GraphIO.class - [JAR]

├─ net.maizegenetics.pangenome.api.GraphSpliterator.class - [JAR]

├─ net.maizegenetics.pangenome.api.GraphToGenotypeTable.class - [JAR]

├─ net.maizegenetics.pangenome.api.GraphUtils.class - [JAR]

├─ net.maizegenetics.pangenome.api.HaplotypeEdge.class - [JAR]

├─ net.maizegenetics.pangenome.api.HaplotypeEmissionProbability.class - [JAR]

├─ net.maizegenetics.pangenome.api.HaplotypeEmissionProbabilityKt.class - [JAR]

├─ net.maizegenetics.pangenome.api.HaplotypeGraph.class - [JAR]

├─ net.maizegenetics.pangenome.api.HaplotypeGraphBuilderPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.api.HaplotypeGraphStream.class - [JAR]

├─ net.maizegenetics.pangenome.api.HaplotypeGraphStreamBuilderPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.api.HaplotypeNode.class - [JAR]

├─ net.maizegenetics.pangenome.api.HaplotypePath.class - [JAR]

├─ net.maizegenetics.pangenome.api.HaplotypeSequence.class - [JAR]

├─ net.maizegenetics.pangenome.api.LoadQueue.class - [JAR]

├─ net.maizegenetics.pangenome.api.MergeVariantInfosKt.class - [JAR]

├─ net.maizegenetics.pangenome.api.Method.class - [JAR]

├─ net.maizegenetics.pangenome.api.MethodTableReportPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.api.RMethods.class - [JAR]

├─ net.maizegenetics.pangenome.api.RPHGMethodsKotlin.class - [JAR]

├─ net.maizegenetics.pangenome.api.ReadMethodTablePlugin.class - [JAR]

├─ net.maizegenetics.pangenome.api.ReferenceRange.class - [JAR]

├─ net.maizegenetics.pangenome.api.ReferenceRangeEmissionProbability.class - [JAR]

├─ net.maizegenetics.pangenome.api.ReferenceRangeSummaryPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.api.ReferenceRangeTransitionProbability.class - [JAR]

├─ net.maizegenetics.pangenome.api.Variant.class - [JAR]

├─ net.maizegenetics.pangenome.api.VariantUtils.class - [JAR]

├─ net.maizegenetics.pangenome.api.WriteFastaFromGraphPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.api.WriteGraphAsGFAPlugin.class - [JAR]

net.maizegenetics.pangenome.fastaExtraction

├─ net.maizegenetics.pangenome.fastaExtraction.CreateDBLoadScripts.class - [JAR]

├─ net.maizegenetics.pangenome.fastaExtraction.CreateFastaDBFiles.class - [JAR]

├─ net.maizegenetics.pangenome.fastaExtraction.ExtractFastaFromGVCFCBSU.class - [JAR]

├─ net.maizegenetics.pangenome.fastaExtraction.ExtractFastaUtils.class - [JAR]

├─ net.maizegenetics.pangenome.fastaExtraction.GVCFGenotypeSequence.class - [JAR]

├─ net.maizegenetics.pangenome.fastaExtraction.GVCFSequence.class - [JAR]

net.maizegenetics.pangenome.multiSequenceAlignment

├─ net.maizegenetics.pangenome.multiSequenceAlignment.ComputeNDistribution.class - [JAR]

├─ net.maizegenetics.pangenome.multiSequenceAlignment.RemoveLongRunNs.class - [JAR]

├─ net.maizegenetics.pangenome.multiSequenceAlignment.SplitMafftRun.class - [JAR]

net.maizegenetics.pangenome.liquibase

├─ net.maizegenetics.pangenome.liquibase.CheckDBVersionPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.liquibase.LiquibaseUpdatePlugin.class - [JAR]

├─ net.maizegenetics.pangenome.liquibase.LiquibaseUpdatePluginKt.class - [JAR]

net.maizegenetics.pangenome.processAssemblyGenomes

├─ net.maizegenetics.pangenome.processAssemblyGenomes.AlterNucmerFirstLinePlugin.class - [JAR]

├─ net.maizegenetics.pangenome.processAssemblyGenomes.AlterNucmerFirstLinePluginKt.class - [JAR]

├─ net.maizegenetics.pangenome.processAssemblyGenomes.AssemblyConsensusMetricPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.processAssemblyGenomes.AssemblyConsensusMetricPluginKt.class - [JAR]

├─ net.maizegenetics.pangenome.processAssemblyGenomes.AssemblyHapMetricPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.processAssemblyGenomes.AssemblyHapMetricPluginKt.class - [JAR]

├─ net.maizegenetics.pangenome.processAssemblyGenomes.AssemblyHaplotypesMultiThreadPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.processAssemblyGenomes.AssemblyHaplotypesMultiThreadPluginKt.class - [JAR]

├─ net.maizegenetics.pangenome.processAssemblyGenomes.AssemblyHaplotypesPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.processAssemblyGenomes.AssemblyMAFFromAnchorWavePlugin.class - [JAR]

├─ net.maizegenetics.pangenome.processAssemblyGenomes.AssemblyMAFFromAnchorWavePluginKt.class - [JAR]

├─ net.maizegenetics.pangenome.processAssemblyGenomes.AssemblyProcessingUtils.class - [JAR]

├─ net.maizegenetics.pangenome.processAssemblyGenomes.CreateASMCoordsUpdateFilesPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.processAssemblyGenomes.CreateASMCoordsUpdateFilesPluginKt.class - [JAR]

├─ net.maizegenetics.pangenome.processAssemblyGenomes.CreateContigFastaFromAssemblyGenomePlugin.class - [JAR]

├─ net.maizegenetics.pangenome.processAssemblyGenomes.FindRampSeqContigsInAssemblies.class - [JAR]

├─ net.maizegenetics.pangenome.processAssemblyGenomes.GVCFBedfileMetricPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.processAssemblyGenomes.GVCFBedfileMetricPluginKt.class - [JAR]

├─ net.maizegenetics.pangenome.processAssemblyGenomes.MAFToGVCFPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.processAssemblyGenomes.MAFToGVCFPluginKt.class - [JAR]

├─ net.maizegenetics.pangenome.processAssemblyGenomes.MafUtils.class - [JAR]

├─ net.maizegenetics.pangenome.processAssemblyGenomes.MafUtilsKt.class - [JAR]

├─ net.maizegenetics.pangenome.processAssemblyGenomes.Mummer4DoonerBZStats.class - [JAR]

├─ net.maizegenetics.pangenome.processAssemblyGenomes.MummerAnalysisMetricsPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.processAssemblyGenomes.MummerScriptProcessing.class - [JAR]

├─ net.maizegenetics.pangenome.processAssemblyGenomes.PairedSimilarFragment.class - [JAR]

├─ net.maizegenetics.pangenome.processAssemblyGenomes.RampSeqContigToGenomeIntervalPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.processAssemblyGenomes.RedirectStreams.class - [JAR]

├─ net.maizegenetics.pangenome.processAssemblyGenomes.ResizeRefBlockPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.processAssemblyGenomes.RetrieveGenomeFileDataPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.processAssemblyGenomes.RetrieveGenomeFileDataPluginKt.class - [JAR]

├─ net.maizegenetics.pangenome.processAssemblyGenomes.ScorePafFileByNMThresholdPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.processAssemblyGenomes.ScorePafFileByNMThresholdPluginKt.class - [JAR]

├─ net.maizegenetics.pangenome.processAssemblyGenomes.SplitASMContigsByLengthPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.processAssemblyGenomes.SplitASMContigsByLengthPluginKt.class - [JAR]

├─ net.maizegenetics.pangenome.processAssemblyGenomes.SyntenicAnchors.class - [JAR]

net.maizegenetics.pangenome.trimAnchors

├─ net.maizegenetics.pangenome.trimAnchors.AnchorInfo.class - [JAR]

├─ net.maizegenetics.pangenome.trimAnchors.TrimGenotypeTableAnchors.class - [JAR]

net.maizegenetics.pangenome.hapcollapse

├─ net.maizegenetics.pangenome.hapcollapse.CentroidPathFromGraphPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.hapcollapse.CompareAssembliesToReference.class - [JAR]

├─ net.maizegenetics.pangenome.hapcollapse.ConsensusProcessingUtils.class - [JAR]

├─ net.maizegenetics.pangenome.hapcollapse.CreateHaplotypesFromFasta.class - [JAR]

├─ net.maizegenetics.pangenome.hapcollapse.DistanceCalculation.class - [JAR]

├─ net.maizegenetics.pangenome.hapcollapse.FillIndelsIntoConsensus.class - [JAR]

├─ net.maizegenetics.pangenome.hapcollapse.FindHaplotypeClustersPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.hapcollapse.GVCFTyperPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.hapcollapse.GVCFUtils.class - [JAR]

├─ net.maizegenetics.pangenome.hapcollapse.KmerBasedConsensusUtils.class - [JAR]

├─ net.maizegenetics.pangenome.hapcollapse.MergeGVCFPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.hapcollapse.MergeGVCFUtils.class - [JAR]

├─ net.maizegenetics.pangenome.hapcollapse.ProfileMxdivPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.hapcollapse.ProfileMxdivPluginKt.class - [JAR]

├─ net.maizegenetics.pangenome.hapcollapse.PurgeSequencesFromAlignments.class - [JAR]

├─ net.maizegenetics.pangenome.hapcollapse.QualityReportAnchorsToHaplotypes.class - [JAR]

├─ net.maizegenetics.pangenome.hapcollapse.RankingFilePlugin.class - [JAR]

├─ net.maizegenetics.pangenome.hapcollapse.RankingFilePluginKt.class - [JAR]

├─ net.maizegenetics.pangenome.hapcollapse.RefAltData.class - [JAR]

├─ net.maizegenetics.pangenome.hapcollapse.RunGVCFTyper.class - [JAR]

├─ net.maizegenetics.pangenome.hapcollapse.RunHapCollapsePipelinePlugin.class - [JAR]

├─ net.maizegenetics.pangenome.hapcollapse.RunHapConsensusPipelinePlugin.class - [JAR]

net.maizegenetics.pangenome.smallseq

├─ net.maizegenetics.pangenome.smallseq.CreateSmallGenomesPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.smallseq.CreateTestGenomes.class - [JAR]

├─ net.maizegenetics.pangenome.smallseq.SmallSeqPaths.class - [JAR]

net.maizegenetics.pangenome.db_updateDelete

├─ net.maizegenetics.pangenome.db_updateDelete.DeletePathsPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.db_updateDelete.DeletePathsPluginKt.class - [JAR]

├─ net.maizegenetics.pangenome.db_updateDelete.DeleteReadMappingPlugin.class - [JAR]

├─ net.maizegenetics.pangenome.db_updateDelete.DeleteReadMappingPluginKt.class - [JAR]

net.maizegenetics : phg

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net.maizegenetics:phg · PHG - Practical Haplotype Graph

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