extractBreakpointSequence: Extracts the breakpoint sequence.

Description Usage Arguments Details Value

View source: R/BreakpointGRanges.R

Description

Extracts the breakpoint sequence.

Usage

1
extractBreakpointSequence(gr, ref, anchoredBases, remoteBases = anchoredBases)

Arguments

gr

breakpoint GRanges

ref

Reference BSgenome

anchoredBases

Number of bases leading into breakpoint to extract

remoteBases

Number of bases from other side of breakpoint to extract

Details

The sequence is the sequenced traversed from the reference anchor bases to the breakpoint. For backward (-) breakpoints, this corresponds to the reverse compliment of the reference sequence bases.

Value

Breakpoint sequence around the variant position.


PapenfussLab/StructuralVariantAnnotation documentation built on Dec. 25, 2021, 1:20 a.m.