inFrameList: Evaluate whether fusion amino acid sequence is a subsequence...
In cancer-genomics/trellis: Somatic structural variant analysis
inFrameList R Documentation
Evaluate whether fusion amino acid sequence is a subsequence of the reference
Description
For each fusion and for each possible read frame, we check whether the amino acid sequence derived from the 5- and 3-prime transcripts of the fusion are subsequences of the full amino acid sequence of the reference genome translated in the same frame
Usage
inFrameList(fusion.frames, ref.frames)
Arguments
fusion.frames
a List created by partitionAASequence
ref.frames
a List created by organizeReferenceByFrame
See Also
partitionAASequence organizeReferenceByFrame
cancer-genomics/trellis documentation built on Feb. 2, 2023, 7:04 p.m.
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| inFrameList | R Documentation |
Evaluate whether fusion amino acid sequence is a subsequence of the reference
Description
For each fusion and for each possible read frame, we check whether the amino acid sequence derived from the 5- and 3-prime transcripts of the fusion are subsequences of the full amino acid sequence of the reference genome translated in the same frame
Usage
inFrameList(fusion.frames, ref.frames)
Arguments
fusion.frames |
a |
ref.frames |
a |
See Also
partitionAASequence organizeReferenceByFrame
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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