/// <summary>
/// Refines layout of alignment between reads and reference genome by taking care of indels and rearrangements.
/// </summary>
/// <param name="deltaAlignmentCollection">Ordered Repeat Resolved Deltas.</param>
private static IEnumerable <DeltaAlignment> LayoutRefinment(DeltaAlignmentCollection deltaAlignmentCollection)
{
return(LayoutRefiner.RefineLayout(deltaAlignmentCollection));
}
/// <summary>
/// Refines layout of alignment between reads and reference genome by taking care of indels and rearrangements.
/// </summary>
/// <param name="orderedRepeatResolvedDeltas">Ordered Repeat Resolved Deltas.</param>
private void LayoutRefinment(IList <DeltaAlignment> orderedRepeatResolvedDeltas)
{
LayoutRefiner.RefineLayout(orderedRepeatResolvedDeltas);
}
