[ Bron: picard-tools ]
Pakket: picard-tools (2.27.5+dfsg-2)
Verwijzigingen voor picard-tools
Debian bronnen:
Het bronpakket picard-tools downloaden:
- [picard-tools_2.27.5+dfsg-2.dsc]
- [picard-tools_2.27.5+dfsg.orig.tar.xz]
- [picard-tools_2.27.5+dfsg-2.debian.tar.xz]
Beheerders:
- Debian Med Packaging Team (QA-pagina, Mailarchief)
- Charles Plessy (QA-pagina)
- Olivier Sallou (QA-pagina)
- Vincent Danjean (QA-pagina)
- Andreas Tille (QA-pagina)
- Steffen Moeller (QA-pagina)
- Pierre Gruet (QA-pagina)
Externe bronnen:
- Homepage [broadinstitute.github.io]
Vergelijkbare pakketten:
Command line tools to manipulate SAM and BAM files
SAM (Sequence Alignment/Map) format is a generic format for storing large nucleotide sequence alignments. Picard Tools includes these utilities to manipulate SAM and BAM files:
AddCommentsToBam FifoBuffer
AddOrReplaceReadGroups FilterSamReads
BaitDesigner FilterVcf
BamIndexStats FixMateInformation
GatherBamFiles
BedToIntervalList GatherVcfs
BuildBamIndex GenotypeConcordance
CalculateHsMetrics IlluminaBasecallsToFastq
CalculateReadGroupChecksum IlluminaBasecallsToSam
CheckIlluminaDirectory LiftOverIntervalList
CheckTerminatorBlock LiftoverVcf
CleanSam MakeSitesOnlyVcf
CollectAlignmentSummaryMetrics MarkDuplicates
CollectBaseDistributionByCycle MarkDuplicatesWithMateCigar
CollectGcBiasMetrics MarkIlluminaAdapters
CollectHiSeqXPfFailMetrics MeanQualityByCycle
CollectIlluminaBasecallingMetrics MergeBamAlignment
CollectIlluminaLaneMetrics MergeSamFiles
CollectInsertSizeMetrics MergeVcfs
CollectJumpingLibraryMetrics NormalizeFasta
CollectMultipleMetrics PositionBasedDownsampleSam
CollectOxoGMetrics QualityScoreDistribution
CollectQualityYieldMetrics RenameSampleInVcf
CollectRawWgsMetrics ReorderSam
CollectRnaSeqMetrics ReplaceSamHeader
CollectRrbsMetrics RevertOriginalBaseQualitiesAndAddMateCigar
CollectSequencingArtifactMetrics RevertSam
CollectTargetedPcrMetrics SamFormatConverter
CollectVariantCallingMetrics SamToFastq
CollectWgsMetrics ScatterIntervalsByNs
CompareMetrics SortSam
CompareSAMs SortVcf
ConvertSequencingArtifactToOxoG SplitSamByLibrary
CreateSequenceDictionary SplitVcfs
DownsampleSam UpdateVcfSequenceDictionary
EstimateLibraryComplexity ValidateSamFile
ExtractIlluminaBarcodes VcfFormatConverter
ExtractSequences VcfToIntervalList
FastqToSam ViewSam
Andere aan picard-tools gerelateerde pakketten
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- dep: default-jre
- Standard Java or Java compatible Runtime
- of java6-runtime
- virtueel pakket geboden door default-jre, openjdk-17-jre
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- dep: libpicard-java (= 2.27.5+dfsg-2)
- Java library to manipulate SAM and BAM files