Searched refs:SAM_HEADER (Results 1 – 5 of 5) sorted by relevance
| /dports/biology/gatk/gatk-4.2.0.0/src/test/java/org/broadinstitute/hellbender/utils/genotyper/ |
| H A D | ReadLikelihoodsUnitTester.java | 44 …private static SAMFileHeader SAM_HEADER = ArtificialReadUtils.createArtificialSamHeader(10, 0, 100… field in ReadLikelihoodsUnitTester
51 …reads.add(ArtificialReadUtils.createArtificialRead(SAM_HEADER, "READ_" + sampleIndex + "_" + (read… in readList()
69 … records.add(ArtificialReadUtils.createArtificialRead(SAM_HEADER,"READ_" + (readIndex++),1,1,100)); in sampleToReads()
|
| H A D | AlleleLikelihoodsUnitTest.java | 207 …final SimpleInterval evenReadOverlap = new SimpleInterval(SAM_HEADER.getSequenceDictionary().getSe…
235 …final SimpleInterval evenReadOverlap = new SimpleInterval(SAM_HEADER.getSequenceDictionary().getSe…
279 …final GenomeLoc evenReadOverlap = locParser.createGenomeLoc(SAM_HEADER.getSequenceDictionary().get…
593 reads.add(ArtificialReadUtils.createArtificialRead(SAM_HEADER,
768 private SAMFileHeader SAM_HEADER = ArtificialReadUtils.createArtificialSamHeader(10, 0, 1000);
769 final GenomeLocParser locParser = new GenomeLocParser(SAM_HEADER.getSequenceDictionary());
|
| /dports/biology/gatk/gatk-4.2.0.0/src/test/java/org/broadinstitute/hellbender/tools/walkers/mutect/ |
| H A D | UniqueAltReadCountUnitTest.java | 68 …final SAMFileHeader SAM_HEADER = ArtificialReadUtils.createArtificialSamHeader(numChromosomes, sta… in createTestLikelihoods() local
85 …final GATKRead read = ArtificialReadUtils.createArtificialRead(SAM_HEADER, "Read" + i, chromosomeI… in createTestLikelihoods()
92 …final GATKRead read = ArtificialReadUtils.createArtificialRead(SAM_HEADER, "Read" + j, chromosomeI… in createTestLikelihoods()
|
| /dports/biology/gatk/gatk-4.2.0.0/src/test/java/org/broadinstitute/hellbender/tools/walkers/annotator/ |
| H A D | ReadPositionUnitTest.java | 25 final SAMFileHeader SAM_HEADER = ArtificialReadUtils.createArtificialSamHeader(10, 0, 1000); in test() local
43 final GATKRead read = ArtificialReadUtils.createArtificialRead(SAM_HEADER, in test()
|
| H A D | BaseQualityUnitTest.java | 25 final SAMFileHeader SAM_HEADER = ArtificialReadUtils.createArtificialSamHeader(10, 0, 1000); in test() local
41 final GATKRead read = ArtificialReadUtils.createArtificialRead(SAM_HEADER, in test()
|