libblasr-dev 0~20161219-1 / usr / include / pbseq / alignment

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/usr/include/pbseq/alignment/ is in libblasr-dev 0~20161219-1.

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File Mime Type Owner Mode Size
..
/usr/include/pbseq/alignment/MappingMetrics.hpp text/x-c++ root:root 0o644 2.7 KB
/usr/include/pbseq/alignment/algorithms/ root:root 0o755
/usr/include/pbseq/alignment/algorithms/alignment/ root:root 0o755
/usr/include/pbseq/alignment/algorithms/alignment/AffineGuidedAlign.hpp text/x-c root:root 0o644 20.6 KB
/usr/include/pbseq/alignment/algorithms/alignment/AffineKBandAlign.hpp text/x-c root:root 0o644 14.0 KB
/usr/include/pbseq/alignment/algorithms/alignment/AlignmentFormats.hpp text/plain root:root 0o644 216 bytes
/usr/include/pbseq/alignment/algorithms/alignment/AlignmentUtils.hpp text/x-c root:root 0o644 5.3 KB
/usr/include/pbseq/alignment/algorithms/alignment/AlignmentUtilsImpl.hpp text/x-c root:root 0o644 17.7 KB
/usr/include/pbseq/alignment/algorithms/alignment/BaseScoreFunction.hpp text/x-c++ root:root 0o644 469 bytes
/usr/include/pbseq/alignment/algorithms/alignment/DistanceMatrixScoreFunction.hpp text/x-c++ root:root 0o644 1.5 KB
/usr/include/pbseq/alignment/algorithms/alignment/DistanceMatrixScoreFunctionImpl.hpp text/x-c root:root 0o644 3.9 KB
/usr/include/pbseq/alignment/algorithms/alignment/ExtendAlign.hpp text/x-c++ root:root 0o644 14.6 KB
/usr/include/pbseq/alignment/algorithms/alignment/FullQVAlign.hpp text/x-c root:root 0o644 5.3 KB
/usr/include/pbseq/alignment/algorithms/alignment/GraphPaper.hpp text/x-c root:root 0o644 871 bytes
/usr/include/pbseq/alignment/algorithms/alignment/GraphPaperImpl.hpp text/plain root:root 0o644 4.2 KB
/usr/include/pbseq/alignment/algorithms/alignment/GuidedAlign.hpp text/x-c++ root:root 0o644 20.9 KB
/usr/include/pbseq/alignment/algorithms/alignment/IDSScoreFunction.hpp text/x-c root:root 0o644 4.7 KB
/usr/include/pbseq/alignment/algorithms/alignment/KBandAlign.hpp text/x-c root:root 0o644 10.3 KB
/usr/include/pbseq/alignment/algorithms/alignment/OneGapAlignment.hpp text/x-c root:root 0o644 12.5 KB
/usr/include/pbseq/alignment/algorithms/alignment/QualityValueScoreFunction.hpp text/x-c++ root:root 0o644 1.8 KB
/usr/include/pbseq/alignment/algorithms/alignment/SDPAlign.hpp text/x-c root:root 0o644 2.5 KB
/usr/include/pbseq/alignment/algorithms/alignment/SDPAlignImpl.hpp text/x-c root:root 0o644 25.8 KB
/usr/include/pbseq/alignment/algorithms/alignment/SWAlign.hpp text/x-c root:root 0o644 540 bytes
/usr/include/pbseq/alignment/algorithms/alignment/SWAlignImpl.hpp text/x-c root:root 0o644 15.3 KB
/usr/include/pbseq/alignment/algorithms/alignment/ScoreMatrices.hpp text/x-c root:root 0o644 383 bytes
/usr/include/pbseq/alignment/algorithms/alignment/StringToScoreMatrix.hpp text/x-c root:root 0o644 212 bytes
/usr/include/pbseq/alignment/algorithms/alignment/sdp/ root:root 0o755
/usr/include/pbseq/alignment/algorithms/alignment/sdp/FragmentSort.hpp text/x-c++ root:root 0o644 425 bytes
/usr/include/pbseq/alignment/algorithms/alignment/sdp/FragmentSortImpl.hpp text/x-c root:root 0o644 374 bytes
/usr/include/pbseq/alignment/algorithms/alignment/sdp/NonoverlappingSparseDynamicProgramming.h text/x-c root:root 0o644 5.6 KB
/usr/include/pbseq/alignment/algorithms/alignment/sdp/SDPColumn.hpp text/x-c++ root:root 0o644 545 bytes
/usr/include/pbseq/alignment/algorithms/alignment/sdp/SDPFragment.hpp text/x-c++ root:root 0o644 2.8 KB
/usr/include/pbseq/alignment/algorithms/alignment/sdp/SDPSet.hpp text/x-c++ root:root 0o644 1.1 KB
/usr/include/pbseq/alignment/algorithms/alignment/sdp/SDPSetImpl.hpp text/x-c root:root 0o644 2.2 KB
/usr/include/pbseq/alignment/algorithms/alignment/sdp/SparseDynamicProgramming.hpp text/x-c root:root 0o644 1.3 KB
/usr/include/pbseq/alignment/algorithms/alignment/sdp/SparseDynamicProgrammingImpl.hpp text/x-c root:root 0o644 10.4 KB
/usr/include/pbseq/alignment/algorithms/alignment/sdp/VariableLengthSDPFragment.h text/x-c root:root 0o644 862 bytes
/usr/include/pbseq/alignment/algorithms/anchoring/ root:root 0o755
/usr/include/pbseq/alignment/algorithms/anchoring/BWTSearch.hpp text/x-c root:root 0o644 1013 bytes
/usr/include/pbseq/alignment/algorithms/anchoring/BWTSearchImpl.hpp text/plain root:root 0o644 446 bytes
/usr/include/pbseq/alignment/algorithms/anchoring/BasicEndpoint.hpp text/x-c++ root:root 0o644 1.5 KB
/usr/include/pbseq/alignment/algorithms/anchoring/BasicEndpointImpl.hpp text/x-c root:root 0o644 2.3 KB
/usr/include/pbseq/alignment/algorithms/anchoring/ClusterProbability.hpp text/x-c root:root 0o644 366 bytes
/usr/include/pbseq/alignment/algorithms/anchoring/Coordinate.hpp text/x-c++ root:root 0o644 1.2 KB
/usr/include/pbseq/alignment/algorithms/anchoring/FindMaxInterval.hpp text/x-c++ root:root 0o644 5.9 KB
/usr/include/pbseq/alignment/algorithms/anchoring/FindMaxIntervalImpl.hpp text/x-c root:root 0o644 33.0 KB
/usr/include/pbseq/alignment/algorithms/anchoring/GlobalChain.hpp text/x-c root:root 0o644 1.3 KB
/usr/include/pbseq/alignment/algorithms/anchoring/GlobalChainImpl.hpp text/x-c root:root 0o644 6.2 KB
/usr/include/pbseq/alignment/algorithms/anchoring/LISPValue.hpp text/x-c root:root 0o644 701 bytes
/usr/include/pbseq/alignment/algorithms/anchoring/LISPValueImpl.hpp text/x-c root:root 0o644 4.5 KB
/usr/include/pbseq/alignment/algorithms/anchoring/LISPValueWeightor.hpp text/x-c++ root:root 0o644 1.5 KB
/usr/include/pbseq/alignment/algorithms/anchoring/LISPValueWeightorImpl.hpp text/x-c root:root 0o644 3.7 KB
/usr/include/pbseq/alignment/algorithms/anchoring/LISQValueWeightor.hpp text/x-c++ root:root 0o644 936 bytes
/usr/include/pbseq/alignment/algorithms/anchoring/LISSizeWeightor.hpp text/x-c++ root:root 0o644 272 bytes
/usr/include/pbseq/alignment/algorithms/anchoring/LISSizeWeightorImpl.hpp text/plain root:root 0o644 364 bytes
/usr/include/pbseq/alignment/algorithms/anchoring/LongestIncreasingSubsequence.hpp text/x-c root:root 0o644 792 bytes
/usr/include/pbseq/alignment/algorithms/anchoring/LongestIncreasingSubsequenceImpl.hpp text/x-c root:root 0o644 3.4 KB
/usr/include/pbseq/alignment/algorithms/anchoring/MapBySuffixArray.hpp text/x-c root:root 0o644 1.7 KB
/usr/include/pbseq/alignment/algorithms/anchoring/MapBySuffixArrayImpl.hpp text/x-c root:root 0o644 10.8 KB
/usr/include/pbseq/alignment/algorithms/anchoring/PrioritySearchTree.hpp text/x-c++ root:root 0o644 1.8 KB
/usr/include/pbseq/alignment/algorithms/anchoring/PrioritySearchTreeImpl.hpp text/plain root:root 0o644 9.8 KB
/usr/include/pbseq/alignment/algorithms/anchoring/ScoreAnchors.hpp text/x-c root:root 0o644 1.5 KB
/usr/include/pbseq/alignment/algorithms/anchoring/ScoreAnchorsImpl.hpp text/plain root:root 0o644 4.9 KB
/usr/include/pbseq/alignment/algorithms/compare/ root:root 0o755
/usr/include/pbseq/alignment/algorithms/compare/CompareStrings.hpp text/x-c++ root:root 0o644 1.8 KB
/usr/include/pbseq/alignment/algorithms/sorting/ root:root 0o755
/usr/include/pbseq/alignment/algorithms/sorting/DifferenceCovers.hpp text/x-c root:root 0o644 1.3 KB
/usr/include/pbseq/alignment/algorithms/sorting/Karkkainen.hpp text/x-c root:root 0o644 4.4 KB
/usr/include/pbseq/alignment/algorithms/sorting/LightweightSuffixArray.hpp text/x-c++ root:root 0o644 2.9 KB
/usr/include/pbseq/alignment/algorithms/sorting/MultikeyQuicksort.hpp text/x-c root:root 0o644 1.6 KB
/usr/include/pbseq/alignment/algorithms/sorting/qsufsort.hpp text/x-c++ root:root 0o644 14.4 KB
/usr/include/pbseq/alignment/anchoring/ root:root 0o755
/usr/include/pbseq/alignment/anchoring/AnchorParameters.hpp text/x-c++ root:root 0o644 846 bytes
/usr/include/pbseq/alignment/bwt/ root:root 0o755
/usr/include/pbseq/alignment/bwt/BWT.hpp text/x-c++ root:root 0o644 7.7 KB
/usr/include/pbseq/alignment/bwt/Occ.hpp text/x-c++ root:root 0o644 7.9 KB
/usr/include/pbseq/alignment/bwt/PackedHash.hpp text/x-c++ root:root 0o644 12.0 KB
/usr/include/pbseq/alignment/bwt/Pos.hpp text/x-c++ root:root 0o644 1.1 KB
/usr/include/pbseq/alignment/datastructures/ root:root 0o755
/usr/include/pbseq/alignment/datastructures/alignment/ root:root 0o755
/usr/include/pbseq/alignment/datastructures/alignment/AlignedPair.h text/x-c root:root 0o644 263 bytes
/usr/include/pbseq/alignment/datastructures/alignment/Alignment.hpp text/x-c++ root:root 0o644 5.0 KB
/usr/include/pbseq/alignment/datastructures/alignment/AlignmentCandidate.hpp text/x-c++ root:root 0o644 12.8 KB
/usr/include/pbseq/alignment/datastructures/alignment/AlignmentContext.hpp text/x-c++ root:root 0o644 678 bytes
/usr/include/pbseq/alignment/datastructures/alignment/AlignmentGapList.h text/x-c root:root 0o644 380 bytes
/usr/include/pbseq/alignment/datastructures/alignment/AlignmentMap.hpp text/x-c root:root 0o644 402 bytes
/usr/include/pbseq/alignment/datastructures/alignment/AlignmentStats.hpp text/x-c++ root:root 0o644 484 bytes
/usr/include/pbseq/alignment/datastructures/alignment/ByteAlignment.h text/x-c root:root 0o644 12.3 KB
/usr/include/pbseq/alignment/datastructures/alignment/CmpFile.hpp text/x-c root:root 0o644 881 bytes
/usr/include/pbseq/alignment/datastructures/alignment/CmpIndexedStringTable.h text/x-c root:root 0o644 1.4 KB
/usr/include/pbseq/alignment/datastructures/alignment/CmpReadGroupTable.h text/x-c root:root 0o644 394 bytes
/usr/include/pbseq/alignment/datastructures/alignment/CmpRefSeqTable.h text/x-c root:root 0o644 370 bytes
/usr/include/pbseq/alignment/datastructures/alignment/FilterCriteria.hpp text/x-c++ root:root 0o644 5.3 KB
/usr/include/pbseq/alignment/datastructures/alignment/Path.h text/plain root:root 0o644 711 bytes
/usr/include/pbseq/alignment/datastructures/alignment/SAMToAlignmentCandidateAdapter.hpp text/x-c root:root 0o644 2.6 KB
/usr/include/pbseq/alignment/datastructures/alignmentset/ root:root 0o755
/usr/include/pbseq/alignment/datastructures/alignmentset/AlignmentSetToCmpH5Adapter.hpp text/x-c++ root:root 0o644 2.6 KB
/usr/include/pbseq/alignment/datastructures/alignmentset/AlignmentSetToCmpH5AdapterImpl.hpp text/x-c root:root 0o644 8.9 KB
/usr/include/pbseq/alignment/datastructures/alignmentset/SAMQVConversion.hpp text/plain root:root 0o644 318 bytes
/usr/include/pbseq/alignment/datastructures/alignmentset/SAMSupplementalQVList.hpp text/x-c++ root:root 0o644 923 bytes
/usr/include/pbseq/alignment/datastructures/anchoring/ root:root 0o755
/usr/include/pbseq/alignment/datastructures/anchoring/AnchorParameters.hpp text/x-c++ root:root 0o644 846 bytes
/usr/include/pbseq/alignment/datastructures/anchoring/ClusterList.hpp text/x-c++ root:root 0o644 576 bytes
/usr/include/pbseq/alignment/datastructures/anchoring/MatchPos.hpp text/x-c++ root:root 0o644 4.3 KB
/usr/include/pbseq/alignment/datastructures/anchoring/WeightedInterval.hpp text/x-c++ root:root 0o644 2.5 KB
/usr/include/pbseq/alignment/files/ root:root 0o755
/usr/include/pbseq/alignment/files/BaseSequenceIO.hpp text/x-c++ root:root 0o644 520 bytes
/usr/include/pbseq/alignment/files/CCSIterator.hpp text/x-c++ root:root 0o644 383 bytes
/usr/include/pbseq/alignment/files/FragmentCCSIterator.hpp text/x-c++ root:root 0o644 585 bytes
/usr/include/pbseq/alignment/files/ReaderAgglomerate.hpp text/x-c++ root:root 0o644 4.6 KB
/usr/include/pbseq/alignment/files/ReaderAgglomerateImpl.hpp text/plain root:root 0o644 1.0 KB
/usr/include/pbseq/alignment/format/ root:root 0o755
/usr/include/pbseq/alignment/format/BAMPrinter.hpp text/x-c root:root 0o644 982 bytes
/usr/include/pbseq/alignment/format/BAMPrinterImpl.hpp text/x-c root:root 0o644 7.0 KB
/usr/include/pbseq/alignment/format/CompareSequencesPrinter.hpp text/x-c root:root 0o644 533 bytes
/usr/include/pbseq/alignment/format/CompareSequencesPrinterImpl.hpp text/plain root:root 0o644 2.6 KB
/usr/include/pbseq/alignment/format/IntervalPrinter.hpp text/x-c root:root 0o644 495 bytes
/usr/include/pbseq/alignment/format/SAMHeaderPrinter.hpp text/x-c++ root:root 0o644 10.3 KB
/usr/include/pbseq/alignment/format/SAMPrinter.hpp text/x-c root:root 0o644 3.7 KB
/usr/include/pbseq/alignment/format/SAMPrinterImpl.hpp text/x-c root:root 0o644 10.2 KB
/usr/include/pbseq/alignment/format/StickAlignmentPrinter.hpp text/x-c root:root 0o644 4.5 KB
/usr/include/pbseq/alignment/format/SummaryPrinter.hpp text/x-c root:root 0o644 353 bytes
/usr/include/pbseq/alignment/format/VulgarPrinter.hpp text/x-c++ root:root 0o644 1.2 KB
/usr/include/pbseq/alignment/format/XMLPrinter.hpp text/x-c root:root 0o644 3.9 KB
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/usr/include/pbseq/alignment/ipc/SharedMemoryAllocator.hpp text/x-c root:root 0o644 1.1 KB
/usr/include/pbseq/alignment/query/ root:root 0o755
/usr/include/pbseq/alignment/query/PbiFilterZmwGroupQuery.h text/x-c++ root:root 0o644 981 bytes
/usr/include/pbseq/alignment/query/SequentialZmwGroupQuery.h text/x-c++ root:root 0o644 882 bytes
/usr/include/pbseq/alignment/qvs/ root:root 0o755
/usr/include/pbseq/alignment/qvs/QualityValueProfile.hpp text/x-c++ root:root 0o644 623 bytes
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/usr/include/pbseq/alignment/simulator/CDFMap.hpp text/x-c++ root:root 0o644 1.2 KB
/usr/include/pbseq/alignment/simulator/ContextOutputList.hpp text/x-c++ root:root 0o644 2.9 KB
/usr/include/pbseq/alignment/simulator/ContextSample.hpp text/x-c++ root:root 0o644 579 bytes
/usr/include/pbseq/alignment/simulator/ContextSet.hpp text/x-c++ root:root 0o644 395 bytes
/usr/include/pbseq/alignment/simulator/LengthHistogram.hpp text/x-c++ root:root 0o644 510 bytes
/usr/include/pbseq/alignment/simulator/OutputList.hpp text/x-c++ root:root 0o644 1.2 KB
/usr/include/pbseq/alignment/simulator/OutputSample.hpp text/x-c++ root:root 0o644 1.5 KB
/usr/include/pbseq/alignment/simulator/OutputSampleList.hpp text/x-c++ root:root 0o644 767 bytes
/usr/include/pbseq/alignment/simulator/OutputSampleListSet.hpp text/x-c root:root 0o644 3.3 KB
/usr/include/pbseq/alignment/simulator/QualitySample.hpp text/x-c++ root:root 0o644 579 bytes
/usr/include/pbseq/alignment/statistics/ root:root 0o755
/usr/include/pbseq/alignment/statistics/AnchorDistributionTable.hpp text/plain root:root 0o644 2.5 MB
/usr/include/pbseq/alignment/statistics/LookupAnchorDistribution.hpp text/x-c root:root 0o644 297 bytes
/usr/include/pbseq/alignment/statistics/StatUtils.hpp text/x-c root:root 0o644 6.7 KB
/usr/include/pbseq/alignment/statistics/StatUtilsImpl.hpp text/x-c root:root 0o644 1.2 KB
/usr/include/pbseq/alignment/statistics/VarianceAccumulator.hpp text/x-c++ root:root 0o644 412 bytes
/usr/include/pbseq/alignment/statistics/VarianceAccumulatorImpl.hpp text/x-c root:root 0o644 1.1 KB
/usr/include/pbseq/alignment/statistics/cdfs.hpp text/x-c root:root 0o644 36.7 KB
/usr/include/pbseq/alignment/statistics/pdfs.hpp text/x-c root:root 0o644 284 bytes
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/usr/include/pbseq/alignment/suffixarray/LCPTable.hpp text/x-c++ root:root 0o644 6.0 KB
/usr/include/pbseq/alignment/suffixarray/SharedSuffixArray.hpp text/x-c++ root:root 0o644 2.6 KB
/usr/include/pbseq/alignment/suffixarray/SuffixArray.hpp text/x-c++ root:root 0o644 38.9 KB
/usr/include/pbseq/alignment/suffixarray/SuffixArrayTypes.hpp text/x-c root:root 0o644 586 bytes
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/usr/include/pbseq/alignment/tuples/ root:root 0o755
/usr/include/pbseq/alignment/tuples/BaseTuple.hpp text/x-c++ root:root 0o644 568 bytes
/usr/include/pbseq/alignment/tuples/CompressedDNATuple.hpp text/x-c root:root 0o644 1.9 KB
/usr/include/pbseq/alignment/tuples/CountedTuple.h text/x-c root:root 0o644 206 bytes
/usr/include/pbseq/alignment/tuples/DNATuple.hpp text/x-c++ root:root 0o644 2.6 KB
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/usr/include/pbseq/alignment/tuples/DNATupleList.h text/x-c root:root 0o644 1.4 KB
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/usr/include/pbseq/alignment/tuples/TupleCountTable.hpp text/x-c++ root:root 0o644 675 bytes
/usr/include/pbseq/alignment/tuples/TupleCountTableImpl.hpp text/x-c root:root 0o644 2.9 KB
/usr/include/pbseq/alignment/tuples/TupleList.hpp text/x-c root:root 0o644 1.2 KB
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/usr/include/pbseq/alignment/tuples/TupleMask.h text/plain root:root 0o644 557 bytes
/usr/include/pbseq/alignment/tuples/TupleMatching.hpp text/x-c root:root 0o644 772 bytes
/usr/include/pbseq/alignment/tuples/TupleMatchingImpl.hpp text/x-c root:root 0o644 3.3 KB
/usr/include/pbseq/alignment/tuples/TupleMetrics.hpp text/x-c++ root:root 0o644 332 bytes
/usr/include/pbseq/alignment/tuples/TupleOperations.h text/plain root:root 0o644 67 bytes
/usr/include/pbseq/alignment/tuples/TupleTranslations.h text/plain root:root 0o644 58 bytes
/usr/include/pbseq/alignment/tuples/tuple.h text/x-c root:root 0o644 1.8 KB
/usr/include/pbseq/alignment/utils/ root:root 0o755
/usr/include/pbseq/alignment/utils/FileOfFileNames.hpp text/x-c++ root:root 0o644 680 bytes
/usr/include/pbseq/alignment/utils/FileUtils.hpp text/x-c root:root 0o644 729 bytes
/usr/include/pbseq/alignment/utils/LogUtils.hpp text/x-c root:root 0o644 372 bytes
/usr/include/pbseq/alignment/utils/PhredUtils.hpp text/x-c root:root 0o644 185 bytes
/usr/include/pbseq/alignment/utils/RangeUtils.hpp text/x-c++ root:root 0o644 1.3 KB
/usr/include/pbseq/alignment/utils/RegionUtils.hpp text/x-c root:root 0o644 3.3 KB
/usr/include/pbseq/alignment/utils/RegionUtilsImpl.hpp text/plain root:root 0o644 1.6 KB
/usr/include/pbseq/alignment/utils/SimpleXMLUtils.hpp text/x-c root:root 0o644 2.0 KB

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