本文整理了Java中org.broadinstitute.gatk.utils.sam.GATKSAMRecord.getReadString()方法的一些代码示例，展示了GATKSAMRecord.getReadString()的具体用法。这些代码示例主要来源于Github/Stackoverflow/Maven等平台，是从一些精选项目中提取出来的代码，具有较强的参考意义，能在一定程度帮忙到你。GATKSAMRecord.getReadString()方法的具体详情如下：
包路径：org.broadinstitute.gatk.utils.sam.GATKSAMRecord
类名称：GATKSAMRecord
方法名：getReadString

GATKSAMRecord.getReadString介绍

暂无

代码示例

代码示例来源：origin: broadgsa/gatk-protected

logger.warn("unexpected event kmers out of order between read anchor kmers: " + read.getReadString()
    + " Offending kmer offsets: " + readVertexKmerOffset.get(leftAnchorVertex) + " " + readVertexKmerOffset.get(rightAnchorVertex)
    + " sequences: " +
    read.getReadString().substring(readVertexKmerOffset.get(leftAnchorVertex), haplotypeGraph.getKmerSize() + readVertexKmerOffset.get(leftAnchorVertex)) +
    " " + read.getReadString().substring(readVertexKmerOffset.get(rightAnchorVertex), haplotypeGraph.getKmerSize() + readVertexKmerOffset.get(rightAnchorVertex)) +
    " Reference haplotype: " + haplotypeGraph.getReferenceHaplotype().getBaseString());
return Collections.emptyMap();

代码示例来源：origin: broadgsa/gatk-protected

@SuppressWarnings("unused")
public GATKSAMRecord readFromString(final String readSequence) {
  if (readBySequence == null) {
    final List<GATKSAMRecord> readList = readList();
    readBySequence = new HashMap<>(readList.size());
    for (final GATKSAMRecord r : readList)
      readBySequence.put(r.getReadString(),r);
  }
  return readBySequence.get(readSequence);
}

代码示例来源：origin: broadgsa/gatk

String bases = read.getReadString();
Matcher match = pattern.matcher(bases);

代码示例来源：origin: broadgsa/gatk-protected

Assert.assertEquals(r.getReadString(),haplotypes.get(hapNumber).getBaseString().substring(offset,offset+readLength));
if (as.getReference().indexOf(r.getReadString()) == -1) {
  hapReadsNotInReference[hapNumber]++;

代码示例来源：origin: broadgsa/gatk-protected

correctedRead.setIsStrandless(inputRead.isStrandless());
correctedRead.setReadBases(inputRead.getReadBases());
correctedRead.setReadString(inputRead.getReadString());
correctedRead.setReadGroup(inputRead.getReadGroup());
return correctedRead;