PapenfussLab/StructuralVariantAnnotation
VariantionAnnoration for Structural Variants

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Vignettes
Man pages
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aggregateFunctionsFor: Returns a list of aggegration functions for the given variant... bedpe2breakpointgr: Loads a breakpoint GRanges from a BEDPE file breakpointRanges: Extracts the structural variants as a BreakendGRanges findBreakpointOverlaps: Finds overlapping breakpoints by requiring that breakends on... isSymbolic: Determines whether the variant is a symbolic allele pairs2breakpointgr: Converts a BEDPE Pairs containing pairs of GRanges loaded... partner: GRanges representing the breakend coordinates of structural...
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API
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unpack transformFunctionsFor partner pairwiseLCPrefix pairs2breakpointgr isSymbolic isStructural
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Source code
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tests/testthat/test-util.R tests/testthat/test-extensions-VCF.R tests/testthat/test-extensions-DataFrame.R tests/testthat/test-BreakpointGRanges.R tests/testthat-StructuralVariantAnnotation.R na12878.R R/vcfConstants.R
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PapenfussLab/StructuralVariantAnnotation: VariantionAnnoration for Structural Variants

PapenfussLab/StructuralVariantAnnotation: VariantionAnnoration for Structural Variants
Version 0.7.0

StructuralVariantAnnotation contains useful helper functions for dealing with structural variants in VCF format. The packages contains functions for parsing VCFs from a number of popular callers as well as functions for dealing with breakpoints involving two separate genomic loci encoded as GRanges objects.

Getting started

README.md

Browse package contents

Vignettes Man pages API and functions Files

Package details
AuthorDaniel Cameron
MaintainerDaniel Cameron <[email protected]>
LicenseGPL-3
Version0.7.0
Package repositoryView on GitHub
Installation Install the latest version of this package by entering the following in R: 
install.packages("devtools")
library(devtools)
install_github("PapenfussLab/StructuralVariantAnnotation")
PapenfussLab/StructuralVariantAnnotation documentation built on May 24, 2018, 3:43 a.m.

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