org.broad.igv.bbfile.ZoomDataRecord.getChromName()方法的使用及代码示例

x33g5p2x  于2022-02-05 转载在 其他  
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本文整理了Java中org.broad.igv.bbfile.ZoomDataRecord.getChromName()方法的一些代码示例,展示了ZoomDataRecord.getChromName()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。ZoomDataRecord.getChromName()方法的具体详情如下:
包路径:org.broad.igv.bbfile.ZoomDataRecord
类名称:ZoomDataRecord
方法名:getChromName

ZoomDataRecord.getChromName介绍

暂无

代码示例

代码示例来源:origin: igvteam/igv

String chr = genome.getCanonicalChrName(rec.getChromName());

代码示例来源:origin: igvteam/igv

@Test
public void testBigBed() throws IOException {
  String path = TestUtils.DATA_DIR + "bb/chr21.refseq.bb";
  BBFileReader bbReader = new BBFileReader(path);
  BBFileHeader bbFileHdr = bbReader.getBBFileHeader();
  assertTrue(bbFileHdr.isBigBed());
  String chr = "chr21";
  int start = 26490012;
  int end = 42182827;
  for (BBZoomLevelHeader header : bbReader.getZoomLevels().getZoomLevelHeaders()) {
    assertNotNull(header);
    ZoomLevelIterator zlIter = bbReader.getZoomLevelIterator(header.getZoomLevel(), chr, start, chr, end, false);
    while (zlIter.hasNext()) {
      ZoomDataRecord rec = zlIter.next();
      int n = rec.getBasesCovered();
      if (n > 0) {
        assertEquals(chr, rec.getChromName());
        assertTrue(rec.getChromEnd() >= start && rec.getChromStart() <= end);
      }
    }
  }
}

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