GATK4ΒΆ
Automatically generated index page for GATK4:
GATK4: Apply base quality score recalibration Gatk4ApplyBQSR
(4 versions) v4.1.4.0
GATK4: Base Recalibrator Gatk4BaseRecalibrator
(4 versions) v4.1.4.0
GATK4: CalculateContamination Gatk4CalculateContamination
(6 versions) v4.1.8.1
GATK4: CollectInsertSizeMetrics Gatk4CollectInsertSizeMetrics
(4 versions) v4.1.4.0
GATK4: CreateSequenceDictionary Gatk4CreateSequenceDictionary
(3 versions) v4.1.4.0
GATK4: Generate coverage summary information for reads data Gatk4DepthOfCoverage
(1 versions) v4.1.6.0
GATK4: Convert a FASTQ file to an unaligned BAM or SAM file. Gatk4FastqToSam
(4 versions) v4.1.4.1
GATK4: GetFilterMutectCalls Gatk4FilterMutectCalls
(6 versions) v4.1.8.1
GATK4: GatherBQSRReports Gatk4GatherBQSRReports
(4 versions) v4.1.4.0
GATK4: GatherBamFiles Gatk4GatherBamFiles
(3 versions) v4.1.4.0
GATK4: Gather VCFs Gatk4GatherVcfs
(4 versions) v4.1.4.0
GATK4: Genotype Concordance Gatk4GenotypeConcordance
(4 versions) v4.1.4.0
GATK4: GetPileupSummaries Gatk4GetPileupSummaries
(6 versions) v4.1.8.1
GATK4: GetPileupSummaries Gatk4GetPileupSummaries_cram
(6 versions) v4.1.8.1
GATK4: Haplotype Caller Gatk4HaplotypeCaller
(7 versions) v4.1.8.1
GATK4: LearnReadOrientationModel Gatk4LearnReadOrientationModel
(6 versions) v4.1.8.1
GATK4: Mark Duplicates Gatk4MarkDuplicates
(4 versions) v4.1.4.0
GATK4: Merge SAM or BAM with unmapped BAM file Gatk4MergeBamAlignment
(4 versions) v4.1.4.1
GATK4: MergeMutectStats Gatk4MergeMutectStats
(6 versions) v4.1.8.1
GATK4: Merge SAM Files Gatk4MergeSamFiles
(4 versions) v4.1.4.0
GatkMutect2 Gatk4Mutect2
(7 versions) v4.1.8.1
GatkMutect2 Gatk4Mutect2_cram
(6 versions) v4.1.8.1
GATK4: Print Reads Gatk4PrintReads
(4 versions) v4.1.4.0
GATK4: SelectVariants Gatk4SelectVariants
(4 versions) v4.1.4.0
GATK4: SetNmMdAndUqTags Gatk4SetNmMdAndUqTags
(2 versions) v4.1.4.0
GATK4: SortSAM Gatk4SortSam
(4 versions) v4.1.4.0
GATK4: SplitReads Gatk4SplitReads
(3 versions) v4.1.4.0
GATK4: VariantFiltration Gatk4Variantfiltration
(4 versions) v4.1.4.0
Gatk4: AddOrReplaceReadGroups GatkAddOrReplaceReadGroups
(4 versions) v4.1.4.0
Gatk4: ReorderSam GatkReorderSam
(1 versions) v4.1.4.0
GATK4: SplitNCigarReads GatkSplitNCigarReads
(4 versions) v4.1.4.0