ra_breaks: ra_breaks
In mskilab/skitools: Various mskilab R utilties
ra_breaks R Documentation
ra_breaks
Description
takes in either file or data frame from dranger or snowman or path to BND / SV type vcf file
and returns junctions in VCF format.
Usage
ra_breaks(
rafile,
keep.features = T,
seqlengths = hg_seqlengths(),
chr.convert = T,
geno = NULL,
flipstrand = FALSE,
swap.header = NULL,
breakpointer = FALSE,
seqlevels = NULL,
force.bnd = FALSE,
skip = NA,
get.loose = FALSE
)
Details
The default output is GRangesList each with a length two GRanges whose strands point AWAY from the break. If get.loose = TRUE (only relevant for VCF)
mskilab/skitools documentation built on June 15, 2025, 2:54 p.m.
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| ra_breaks | R Documentation |
ra_breaks
Description
takes in either file or data frame from dranger or snowman or path to BND / SV type vcf file and returns junctions in VCF format.
Usage
ra_breaks(
rafile,
keep.features = T,
seqlengths = hg_seqlengths(),
chr.convert = T,
geno = NULL,
flipstrand = FALSE,
swap.header = NULL,
breakpointer = FALSE,
seqlevels = NULL,
force.bnd = FALSE,
skip = NA,
get.loose = FALSE
)
Details
The default output is GRangesList each with a length two GRanges whose strands point AWAY from the break. If get.loose = TRUE (only relevant for VCF)
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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