InDels and Structural Variants

The InDels and Structural Variants tool is designed to identify structural variants such as insertions, deletions, inversions, translocations and tandem duplications in read mappings and is primarily developed for short read technologies (such as Illumina reads). The tool relies exclusively on information derived from unaligned ends (also called 'soft clippings') of the reads in the mappings. This means that:

In its current version the InDels and Structural Variants tool has the following known limitations:



Subsections