breakpointSequence: Extracts the breakpoint sequence.
In lachlanmcintosh/SAP: A SNP analysis pipeline
Description
Usage
Arguments
Details
Description
Extracts the breakpoint sequence.
Usage
1
breakpointSequence(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.
lachlanmcintosh/SAP documentation built on May 20, 2019, 7:32 p.m.
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Description Usage Arguments Details
Description
Extracts the breakpoint sequence.
Usage
1 | breakpointSequence(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.
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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