Examples with DiscordantReadPair au.edu.wehi.idsv.DiscordantReadPair used on opensource projects

Example 11 with DiscordantReadPair

use of au.edu.wehi.idsv.DiscordantReadPair in project gridss by PapenfussLab.

the class PathNodeIteratorTest method should_assemble_adjacent_sc_rp.

@Test
public void should_assemble_adjacent_sc_rp() {
    SoftClipEvidence sc = SCE(FWD, withSequence("GTGGTCGACC", Read(0, 50, "4M6S")));
    DiscordantReadPair rp = (DiscordantReadPair) NRRP(SES(10, 200), withSequence("GACCT", DP(0, 25, "5M", true, 1, 1, "5M", false)));
    List<KmerPathNode> result = asCheckedKPN(5, 1000, sc, rp);
    assertCompleteGraph(result, 5);
    assertEquals(2, result.size());
    assertEquals(1, result.stream().mapToInt(n -> n.next().size()).sum());
    assertEquals(1, result.stream().mapToInt(n -> n.prev().size()).sum());
}