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| Name | Last modified | Size | Description |
|---|---|---|---|---|
| Parent Directory | - | ||
| BAMbinSortByCoordinate.cpp | 2019-01-24 15:33 | 3.1K | |
| BAMbinSortByCoordinate.h | 2019-01-24 15:33 | 306 | |
| BAMbinSortUnmapped.cpp | 2019-01-24 15:33 | 3.4K | |
| BAMbinSortUnmapped.h | 2019-01-24 15:33 | 273 | |
| BAMfunctions.cpp | 2019-01-24 15:33 | 3.5K | |
| BAMfunctions.h | 2019-01-24 15:33 | 355 | |
| BAMoutput.cpp | 2019-01-24 15:33 | 7.0K | |
| BAMoutput.h | 2019-01-24 15:33 | 1.2K | |
| Chain.cpp | 2019-01-24 15:33 | 5.1K | |
| Chain.h | 2019-01-24 15:33 | 725 | |
| ChimericAlign.cpp | 2019-01-24 15:33 | 1.4K | |
| ChimericAlign.h | 2019-01-24 15:33 | 1.1K | |
| ChimericAlign_chimericJunctionOutput.cpp | 2019-01-24 15:33 | 937 | |
| ChimericAlign_chimericStitching.cpp | 2019-01-24 15:33 | 6.2K | |
| ChimericDetection.cpp | 2019-01-24 15:33 | 394 | |
| ChimericDetection.h | 2019-01-24 15:33 | 852 | |
| ChimericDetection_chimericDetectionMult.cpp | 2019-01-24 15:33 | 5.1K | |
| ChimericSegment.cpp | 2019-01-24 15:33 | 1.7K | |
| ChimericSegment.h | 2019-01-24 15:33 | 555 | |
| ChimericTranscript.h | 2019-01-24 15:33 | 496 | |
| ErrorWarning.cpp | 2019-01-24 15:33 | 830 | |
| ErrorWarning.h | 2019-01-24 15:33 | 222 | |
| Genome.cpp | 2019-01-24 15:33 | 30K | |
| Genome.h | 2019-01-24 15:33 | 2.6K | |
| Genome_genomeGenerate.cpp | 2019-01-24 15:33 | 19K | |
| Genome_insertSequences.cpp | 2019-01-24 15:33 | 1.3K | |
| GlobalVariables.cpp | 2019-01-24 15:33 | 105 | |
| GlobalVariables.h | 2019-01-24 15:33 | 157 | |
| InOutStreams.cpp | 2019-01-24 15:33 | 1.0K | |
| InOutStreams.h | 2019-01-24 15:33 | 540 | |
| IncludeDefine.h | 2019-01-24 15:33 | 5.5K | |
| Makefile | 2019-01-24 15:33 | 6.6K | |
| OutSJ.cpp | 2019-01-24 15:33 | 4.7K | |
| OutSJ.h | 2019-01-24 15:33 | 1.5K | |
| PackedArray.cpp | 2019-01-24 15:33 | 1.1K | |
| PackedArray.h | 2019-01-24 15:33 | 788 | |
| ParameterInfo.h | 2019-01-24 15:33 | 3.2K | |
| Parameters.cpp | 2019-01-24 15:33 | 81K | |
| Parameters.h | 2019-01-24 15:33 | 11K | |
| ParametersChimeric.h | 2019-01-24 15:33 | 860 | |
| ParametersGenome.h | 2019-01-24 15:33 | 946 | |
| ParametersSolo.cpp | 2019-01-24 15:33 | 5.6K | |
| ParametersSolo.h | 2019-01-24 15:33 | 1.1K | |
| Parameters_closeReadsFiles.cpp | 2019-01-24 15:33 | 391 | |
| Parameters_openReadsFiles.cpp | 2019-01-24 15:33 | 6.2K | |
| Parameters_readSAMheader.cpp | 2019-01-24 15:33 | 1.3K | |
| Quantifications.cpp | 2019-01-24 15:33 | 1.1K | |
| Quantifications.h | 2019-01-24 15:33 | 662 | |
| ReadAlign.cpp | 2019-01-24 15:33 | 3.9K | |
| ReadAlign.h | 2019-01-24 15:33 | 8.0K | |
| ReadAlignChunk.cpp | 2019-01-24 15:33 | 5.8K | |
| ReadAlignChunk.h | 2019-01-24 15:33 | 1.4K | |
| ReadAlignChunk_mapChunk.cpp | 2019-01-24 15:33 | 5.9K | |
| ReadAlignChunk_processChunks.cpp | 2019-01-24 15:33 | 14K | |
| ReadAlign_CIGAR.cpp | 2019-01-24 15:33 | 2.7K | |
| ReadAlign_alignBAM.cpp | 2019-01-24 15:33 | 26K | |
| ReadAlign_assignAlignToWindow.cpp | 2019-01-24 15:33 | 5.2K | |
| ReadAlign_calcCIGAR.cpp | 2019-01-24 15:33 | 2.2K | |
| ReadAlign_chimericDetection.cpp | 2019-01-24 15:33 | 1.9K | |
| ReadAlign_chimericDetectionOld.cpp | 2019-01-24 15:33 | 14K | |
| ReadAlign_chimericDetectionOldOutput.cpp | 2019-01-24 15:33 | 7.8K | |
| ReadAlign_chimericDetectionPEmerged.cpp | 2019-01-24 15:33 | 2.9K | |
| ReadAlign_createExtendWindowsWithAlign.cpp | 2019-01-24 15:33 | 3.5K | |
| ReadAlign_mapOneRead.cpp | 2019-01-24 15:33 | 4.4K | |
| ReadAlign_mappedFilter.cpp | 2019-01-24 15:33 | 913 | |
| ReadAlign_maxMappableLength2strands.cpp | 2019-01-24 15:33 | 4.1K | |
| ReadAlign_multMapSelect.cpp | 2019-01-24 15:33 | 4.7K | |
| ReadAlign_oneRead.cpp | 2019-01-24 15:33 | 3.9K | |
| ReadAlign_outputAlignments.cpp | 2019-01-24 15:33 | 12K | |
| ReadAlign_outputTranscriptCIGARp.cpp | 2019-01-24 15:33 | 2.7K | |
| ReadAlign_outputTranscriptSAM.cpp | 2019-01-24 15:33 | 14K | |
| ReadAlign_outputTranscriptSJ.cpp | 2019-01-24 15:33 | 3.1K | |
| ReadAlign_outputVariation.cpp | 2019-01-24 15:33 | 184 | |
| ReadAlign_peOverlapMergeMap.cpp | 2019-01-24 15:33 | 9.7K | |
| ReadAlign_quantTranscriptome.cpp | 2019-01-24 15:33 | 4.3K | |
| ReadAlign_stitchPieces.cpp | 2019-01-24 15:33 | 14K | |
| ReadAlign_stitchWindowSeeds.cpp | 2019-01-24 15:33 | 12K | |
| ReadAlign_storeAligns.cpp | 2019-01-24 15:33 | 5.6K | |
| ReadAlign_waspMap.cpp | 2019-01-24 15:33 | 3.4K | |
| STAR.cpp | 2019-01-24 15:33 | 19K | |
| SequenceFuns.cpp | 2019-01-24 15:33 | 10K | |
| SequenceFuns.h | 2019-01-24 15:33 | 1.1K | |
| SharedMemory.cpp | 2019-01-24 15:33 | 6.3K | |
| SharedMemory.h | 2019-01-24 15:33 | 3.4K | |
| SjdbClass.h | 2019-01-24 15:33 | 268 | |
| Solo.cpp | 2019-01-24 15:33 | 652 | |
| Solo.h | 2019-01-24 15:33 | 453 | |
| SoloFeature.cpp | 2019-01-24 15:33 | 581 | |
| SoloFeature.h | 2019-01-24 15:33 | 1.3K | |
| SoloFeature_collapseUMI.cpp | 2019-01-24 15:33 | 6.9K | |
| SoloFeature_outputResults.cpp | 2019-01-24 15:33 | 2.4K | |
| SoloFeature_processRecords.cpp | 2019-01-24 15:33 | 3.8K | |
| SoloRead.cpp | 2019-01-24 15:33 | 389 | |
| SoloRead.h | 2019-01-24 15:33 | 429 | |
| SoloReadBarcode.cpp | 2019-01-24 15:33 | 1.2K | |
| SoloReadBarcode.h | 2019-01-24 15:33 | 1.0K | |
| SoloReadBarcode_getCBandUMI.cpp | 2019-01-24 15:33 | 3.0K | |
| SoloReadFeature.cpp | 2019-01-24 15:33 | 1.4K | |
| SoloReadFeature.h | 2019-01-24 15:33 | 1.3K | |
| SoloReadFeature_getFeature.cpp | 2019-01-24 15:33 | 2.3K | |
| SoloReadFeature_inputRecords.cpp | 2019-01-24 15:33 | 3.0K | |
| SoloReadFeature_record.cpp | 2019-01-24 15:33 | 2.6K | |
| SoloRead_record.cpp | 2019-01-24 15:33 | 341 | |
| Solo_outputResults.cpp | 2019-01-24 15:33 | 2.2K | |
| Stats.cpp | 2019-01-24 15:33 | 8.4K | |
| Stats.h | 2019-01-24 15:33 | 1.3K | |
| SuffixArrayFuns.cpp | 2019-01-24 15:33 | 11K | |
| SuffixArrayFuns.h | 2019-01-24 15:33 | 936 | |
| ThreadControl.cpp | 2019-01-24 15:33 | 159 | |
| ThreadControl.h | 2019-01-24 15:33 | 676 | |
| TimeFunctions.cpp | 2019-01-24 15:33 | 581 | |
| TimeFunctions.h | 2019-01-24 15:33 | 168 | |
| Transcript.cpp | 2019-01-24 15:33 | 1.3K | |
| Transcript.h | 2019-01-24 15:33 | 2.4K | |
| Transcript_alignScore.cpp | 2019-01-24 15:33 | 2.0K | |
| Transcript_generateCigarP.cpp | 2019-01-24 15:33 | 2.5K | |
| Transcript_variationAdjust.cpp | 2019-01-24 15:33 | 2.3K | |
| Transcript_variationOutput.cpp | 2019-01-24 15:33 | 86 | |
| Transcriptome.cpp | 2019-01-24 15:33 | 4.6K | |
| Transcriptome.h | 2019-01-24 15:33 | 1.6K | |
| Transcriptome_geneCountsAddAlign.cpp | 2019-01-24 15:33 | 2.6K | |
| Transcriptome_quantAlign.cpp | 2019-01-24 15:33 | 5.3K | |
| VERSION | 2019-01-24 15:33 | 35 | |
| Variation.cpp | 2019-01-24 15:33 | 5.5K | |
| Variation.h | 2019-01-24 15:33 | 1.4K | |
| alignSmithWaterman.cpp | 2019-01-24 15:33 | 4.2K | |
| alignSmithWaterman.h | 2019-01-24 15:33 | 217 | |
| bamRemoveDuplicates.cpp | 2019-01-24 15:33 | 9.2K | |
| bamRemoveDuplicates.h | 2019-01-24 15:33 | 235 | |
| bam_cat.c | 2019-01-24 15:33 | 4.6K | |
| bam_cat.h | 2019-01-24 15:33 | 163 | |
| binarySearch2.cpp | 2019-01-24 15:33 | 928 | |
| binarySearch2.h | 2019-01-24 15:33 | 150 | |
| blocksOverlap.cpp | 2019-01-24 15:33 | 1.3K | |
| blocksOverlap.h | 2019-01-24 15:33 | 168 | |
| extendAlign.cpp | 2019-01-24 15:33 | 2.4K | |
| extendAlign.h | 2019-01-24 15:33 | 254 | |
| funCompareUintAndSuffixes.cpp | 2019-01-24 15:33 | 1.3K | |
| funCompareUintAndSuffixes.h | 2019-01-24 15:33 | 263 | |
| funCompareUintAndSuffixesMemcmp.cpp | 2019-01-24 15:33 | 1.2K | |
| funCompareUintAndSuffixesMemcmp.h | 2019-01-24 15:33 | 291 | |
| genomeGenerate.h | 2019-01-24 15:33 | 62 | |
| genomeParametersWrite.cpp | 2019-01-24 15:33 | 1.8K | |
| genomeParametersWrite.h | 2019-01-24 15:33 | 216 | |
| genomeSAindex.cpp | 2019-01-24 15:33 | 10K | |
| genomeSAindex.h | 2019-01-24 15:33 | 479 | |
| genomeScanFastaFiles.cpp | 2019-01-24 15:33 | 4.0K | |
| genomeScanFastaFiles.h | 2019-01-24 15:33 | 231 | |
| htslib/ | 2019-01-24 15:33 | - | |
| insertSeqSA.cpp | 2019-01-24 15:33 | 12K | |
| insertSeqSA.h | 2019-01-24 15:33 | 318 | |
| loadGTF.cpp | 2019-01-24 15:33 | 15K | |
| loadGTF.h | 2019-01-24 15:33 | 201 | |
| mapThreadsSpawn.cpp | 2019-01-24 15:33 | 1.7K | |
| mapThreadsSpawn.h | 2019-01-24 15:33 | 181 | |
| outputSJ.cpp | 2019-01-24 15:33 | 7.0K | |
| outputSJ.h | 2019-01-24 15:33 | 105 | |
| parametersDefault | 2019-01-24 15:33 | 37K | |
| parametersDefault.xxd | 2019-01-24 15:33 | 231K | |
| readLoad.cpp | 2019-01-24 15:33 | 7.3K | |
| readLoad.h | 2019-01-24 15:33 | 445 | |
| serviceFuns.cpp | 2019-01-24 15:33 | 4.4K | |
| signalFromBAM.cpp | 2019-01-24 15:33 | 8.4K | |
| signalFromBAM.h | 2019-01-24 15:33 | 283 | |
| sjAlignSplit.cpp | 2019-01-24 15:33 | 596 | |
| sjdbBuildIndex.cpp | 2019-01-24 15:33 | 13K | |
| sjdbBuildIndex.h | 2019-01-24 15:33 | 278 | |
| sjdbInsertJunctions.cpp | 2019-01-24 15:33 | 6.4K | |
| sjdbInsertJunctions.h | 2019-01-24 15:33 | 242 | |
| sjdbLoadFromFiles.cpp | 2019-01-24 15:33 | 1.0K | |
| sjdbLoadFromFiles.h | 2019-01-24 15:33 | 198 | |
| sjdbLoadFromStream.cpp | 2019-01-24 15:33 | 896 | |
| sjdbLoadFromStream.h | 2019-01-24 15:33 | 185 | |
| sjdbPrepare.cpp | 2019-01-24 15:33 | 10K | |
| sjdbPrepare.h | 2019-01-24 15:33 | 241 | |
| sortSuffixesBucket.h | 2019-01-24 15:33 | 88 | |
| stitchAlignToTranscript.cpp | 2019-01-24 15:33 | 20K | |
| stitchAlignToTranscript.h | 2019-01-24 15:33 | 306 | |
| stitchGapIndel.cpp | 2019-01-24 15:33 | 1.9K | |
| stitchWindowAligns.cpp | 2019-01-24 15:33 | 16K | |
| stitchWindowAligns.h | 2019-01-24 15:33 | 533 | |
| streamFuns.cpp | 2019-01-24 15:33 | 4.9K | |
| streamFuns.h | 2019-01-24 15:33 | 720 | |
| stringSubstituteAll.cpp | 2019-01-24 15:33 | 413 | |
| stringSubstituteAll.h | 2019-01-24 15:33 | 178 | |
| sysRemoveDir.cpp | 2019-01-24 15:33 | 685 | |
| sysRemoveDir.h | 2019-01-24 15:33 | 117 | |