simpleEventType: Type of simplest explaination of event. Possible types are: |...

In StructuralVariantAnnotation: Variant annotations for structural variants

Description

Type of simplest explaination of event. Possible types are: | Type | Description | | BND | Single breakend | | CTX | Interchromosomal translocation | | INV | Inversion. Note that both ++ and – breakpoint will be classified as inversion regardless of whether the matching breakpoint actually exists | | DUP | Tandem duplication | | INS | Insertion | | DEL | Deletion |

Usage

simpleEventType(gr, insertionLengthThreshold = 0.5)

Arguments

gr	breakpoint GRanges object
insertionLengthThreshold	portion of inserted bases compared to total event size to be classified as an insertion. For example, a 5bp deletion with 5 inserted bases will be classified as an INS event.

Value

Type of simplest explaination of event

StructuralVariantAnnotation documentation built on Nov. 8, 2020, 5:43 p.m.