Mercurial > repos > sanbi-uwc > gatk2

annotate gatk2_annotations.loc.sample @ 6:3a0582c3fb06 draft

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planemo upload for repository https://github.com/SANBI-SA/tools-sanbi-uwc/tree/master/tools/gatk2 commit 23bbc6e317e9979a1bade2af5d474f09fca3ff72
author sanbi-uwc
date Fri, 25 May 2018 07:35:20 -0400
parents 5805746de7f0
children
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4
5805746de7f0 planemo upload for repository https://github.com/SANBI-SA/tools-sanbi-uwc/tree/master/tools/gatk2 commit 51cb0f5195eaa6961fedbdd0e7d12720936a1ecd
sanbi-uwc
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1 #unique_id name gatk_value tools_valid_for
5805746de7f0 planemo upload for repository https://github.com/SANBI-SA/tools-sanbi-uwc/tree/master/tools/gatk2 commit 51cb0f5195eaa6961fedbdd0e7d12720936a1ecd
sanbi-uwc
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2 AlleleBalance AlleleBalance AlleleBalance UnifiedGenotyper,VariantAnnotator,VariantRecalibrator,HaplotypeCaller
5805746de7f0 planemo upload for repository https://github.com/SANBI-SA/tools-sanbi-uwc/tree/master/tools/gatk2 commit 51cb0f5195eaa6961fedbdd0e7d12720936a1ecd
sanbi-uwc
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3 AlleleBalanceBySample AlleleBalanceBySample AlleleBalanceBySample UnifiedGenotyper,VariantAnnotator,VariantRecalibrator,HaplotypeCaller
5805746de7f0 planemo upload for repository https://github.com/SANBI-SA/tools-sanbi-uwc/tree/master/tools/gatk2 commit 51cb0f5195eaa6961fedbdd0e7d12720936a1ecd
sanbi-uwc
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4 BaseCounts BaseCounts BaseCounts UnifiedGenotyper,VariantAnnotator,VariantRecalibrator,HaplotypeCaller
5805746de7f0 planemo upload for repository https://github.com/SANBI-SA/tools-sanbi-uwc/tree/master/tools/gatk2 commit 51cb0f5195eaa6961fedbdd0e7d12720936a1ecd
sanbi-uwc
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5 BaseQualityRankSumTest BaseQualityRankSumTest BaseQualityRankSumTest UnifiedGenotyper,VariantAnnotator,VariantRecalibrator,HaplotypeCaller
5805746de7f0 planemo upload for repository https://github.com/SANBI-SA/tools-sanbi-uwc/tree/master/tools/gatk2 commit 51cb0f5195eaa6961fedbdd0e7d12720936a1ecd
sanbi-uwc
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6 ChromosomeCounts ChromosomeCounts ChromosomeCounts UnifiedGenotyper,VariantAnnotator,VariantRecalibrator,HaplotypeCaller
5805746de7f0 planemo upload for repository https://github.com/SANBI-SA/tools-sanbi-uwc/tree/master/tools/gatk2 commit 51cb0f5195eaa6961fedbdd0e7d12720936a1ecd
sanbi-uwc
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7 Coverage Coverage Coverage UnifiedGenotyper,VariantAnnotator,VariantRecalibrator,HaplotypeCaller
5805746de7f0 planemo upload for repository https://github.com/SANBI-SA/tools-sanbi-uwc/tree/master/tools/gatk2 commit 51cb0f5195eaa6961fedbdd0e7d12720936a1ecd
sanbi-uwc
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8 DepthPerAlleleBySample DepthPerAlleleBySample DepthPerAlleleBySample UnifiedGenotyper,VariantAnnotator,VariantRecalibrator,HaplotypeCaller
5805746de7f0 planemo upload for repository https://github.com/SANBI-SA/tools-sanbi-uwc/tree/master/tools/gatk2 commit 51cb0f5195eaa6961fedbdd0e7d12720936a1ecd
sanbi-uwc
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9 FisherStrand FisherStrand FisherStrand UnifiedGenotyper,VariantAnnotator,VariantRecalibrator,HaplotypeCaller
5805746de7f0 planemo upload for repository https://github.com/SANBI-SA/tools-sanbi-uwc/tree/master/tools/gatk2 commit 51cb0f5195eaa6961fedbdd0e7d12720936a1ecd
sanbi-uwc
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10 GCContent GCContent GCContent UnifiedGenotyper,VariantAnnotator,VariantRecalibrator,HaplotypeCaller
5805746de7f0 planemo upload for repository https://github.com/SANBI-SA/tools-sanbi-uwc/tree/master/tools/gatk2 commit 51cb0f5195eaa6961fedbdd0e7d12720936a1ecd
sanbi-uwc
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11 HaplotypeScore HaplotypeScore HaplotypeScore UnifiedGenotyper,VariantAnnotator,VariantRecalibrator,HaplotypeCaller
5805746de7f0 planemo upload for repository https://github.com/SANBI-SA/tools-sanbi-uwc/tree/master/tools/gatk2 commit 51cb0f5195eaa6961fedbdd0e7d12720936a1ecd
sanbi-uwc
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12 HardyWeinberg HardyWeinberg HardyWeinberg UnifiedGenotyper,VariantAnnotator,VariantRecalibrator,HaplotypeCaller
5805746de7f0 planemo upload for repository https://github.com/SANBI-SA/tools-sanbi-uwc/tree/master/tools/gatk2 commit 51cb0f5195eaa6961fedbdd0e7d12720936a1ecd
sanbi-uwc
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13 HomopolymerRun HomopolymerRun HomopolymerRun UnifiedGenotyper,VariantAnnotator,VariantRecalibrator,HaplotypeCaller
5805746de7f0 planemo upload for repository https://github.com/SANBI-SA/tools-sanbi-uwc/tree/master/tools/gatk2 commit 51cb0f5195eaa6961fedbdd0e7d12720936a1ecd
sanbi-uwc
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14 InbreedingCoeff InbreedingCoeff InbreedingCoeff UnifiedGenotyper,VariantAnnotator,VariantRecalibrator,HaplotypeCaller
5805746de7f0 planemo upload for repository https://github.com/SANBI-SA/tools-sanbi-uwc/tree/master/tools/gatk2 commit 51cb0f5195eaa6961fedbdd0e7d12720936a1ecd
sanbi-uwc
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15 LowMQ LowMQ LowMQ UnifiedGenotyper,VariantAnnotator,VariantRecalibrator,HaplotypeCaller
5805746de7f0 planemo upload for repository https://github.com/SANBI-SA/tools-sanbi-uwc/tree/master/tools/gatk2 commit 51cb0f5195eaa6961fedbdd0e7d12720936a1ecd
sanbi-uwc
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16 MVLikelihoodRatio MVLikelihoodRatio MVLikelihoodRatio VariantAnnotator,VariantRecalibrator,HaplotypeCaller
5805746de7f0 planemo upload for repository https://github.com/SANBI-SA/tools-sanbi-uwc/tree/master/tools/gatk2 commit 51cb0f5195eaa6961fedbdd0e7d12720936a1ecd
sanbi-uwc
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17 MappingQualityRankSumTest MappingQualityRankSumTest MappingQualityRankSumTest UnifiedGenotyper,VariantAnnotator,VariantRecalibrator,HaplotypeCaller
5805746de7f0 planemo upload for repository https://github.com/SANBI-SA/tools-sanbi-uwc/tree/master/tools/gatk2 commit 51cb0f5195eaa6961fedbdd0e7d12720936a1ecd
sanbi-uwc
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18 MappingQualityZero MappingQualityZero MappingQualityZero UnifiedGenotyper,VariantAnnotator,VariantRecalibrator,HaplotypeCaller
5805746de7f0 planemo upload for repository https://github.com/SANBI-SA/tools-sanbi-uwc/tree/master/tools/gatk2 commit 51cb0f5195eaa6961fedbdd0e7d12720936a1ecd
sanbi-uwc
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19 MappingQualityZeroBySample MappingQualityZeroBySample MappingQualityZeroBySample UnifiedGenotyper,VariantAnnotator,VariantRecalibrator,HaplotypeCaller
5805746de7f0 planemo upload for repository https://github.com/SANBI-SA/tools-sanbi-uwc/tree/master/tools/gatk2 commit 51cb0f5195eaa6961fedbdd0e7d12720936a1ecd
sanbi-uwc
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20 NBaseCount NBaseCount NBaseCount UnifiedGenotyper,VariantAnnotator,VariantRecalibrator,HaplotypeCaller
5805746de7f0 planemo upload for repository https://github.com/SANBI-SA/tools-sanbi-uwc/tree/master/tools/gatk2 commit 51cb0f5195eaa6961fedbdd0e7d12720936a1ecd
sanbi-uwc
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21 QualByDepth QualByDepth QualByDepth UnifiedGenotyper,VariantAnnotator,VariantRecalibrator,HaplotypeCaller
5805746de7f0 planemo upload for repository https://github.com/SANBI-SA/tools-sanbi-uwc/tree/master/tools/gatk2 commit 51cb0f5195eaa6961fedbdd0e7d12720936a1ecd
sanbi-uwc
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22 RMSMappingQuality RMSMappingQuality RMSMappingQuality UnifiedGenotyper,VariantAnnotator,VariantRecalibrator,HaplotypeCaller
5805746de7f0 planemo upload for repository https://github.com/SANBI-SA/tools-sanbi-uwc/tree/master/tools/gatk2 commit 51cb0f5195eaa6961fedbdd0e7d12720936a1ecd
sanbi-uwc
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23 ReadPosRankSumTest ReadPosRankSumTest ReadPosRankSumTest UnifiedGenotyper,VariantAnnotator,VariantRecalibrator,HaplotypeCaller
5805746de7f0 planemo upload for repository https://github.com/SANBI-SA/tools-sanbi-uwc/tree/master/tools/gatk2 commit 51cb0f5195eaa6961fedbdd0e7d12720936a1ecd
sanbi-uwc
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24 SampleList SampleList SampleList UnifiedGenotyper,VariantAnnotator,VariantRecalibrator,HaplotypeCaller
5805746de7f0 planemo upload for repository https://github.com/SANBI-SA/tools-sanbi-uwc/tree/master/tools/gatk2 commit 51cb0f5195eaa6961fedbdd0e7d12720936a1ecd
sanbi-uwc
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25 SnpEff SnpEff SnpEff VariantAnnotator,VariantRecalibrator,HaplotypeCaller
5805746de7f0 planemo upload for repository https://github.com/SANBI-SA/tools-sanbi-uwc/tree/master/tools/gatk2 commit 51cb0f5195eaa6961fedbdd0e7d12720936a1ecd
sanbi-uwc
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26 SpanningDeletions SpanningDeletions SpanningDeletions UnifiedGenotyper,VariantAnnotator,VariantRecalibrator,HaplotypeCaller