StructuralVariantAnnotation: StructuralVariantAnnotation: a package for SV annotation

Description Details


StructuralVariantAnnotation contains useful helper functions for reading and interpreting structural variants calls. The packages contains functions for parsing VCFs from a number of popular caller as well as functions for dealing with breakpoints involving two separate genomic loci. The package takes a 'GRanges' based breakend-centric approach.


* Parse VCF objects with the 'breakpointRanges()' and 'breakendRanges()'functions. * Find breakpoint overlaps with the 'findBreakpointOverlaps()' and 'countBreakpointOverlaps()' functions. * Generate BEDPE files for circos plot with 'breakpointgr2pairs()' function. * ...

For more details on the features of StructuralVariantAnnotation, read the vignette: 'browseVignettes(package = "StructuralVariantAnnotation")'

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