addCdsOnLeaderEnds: Extends leaders downstream
In JokingHero/ORFik: Open Reading Frames in Genomics
addCdsOnLeaderEnds R Documentation
Extends leaders downstream
Description
When finding uORFs, often you want to allow them to end inside the cds.
Usage
addCdsOnLeaderEnds(fiveUTRs, cds, onlyFirstExon = FALSE)
Arguments
fiveUTRs
The 5' leader sequences as GRangesList
cds
If you want to extend 5' leaders downstream,
to catch uorfs going into cds, include it.
onlyFirstExon
logical (F), include whole cds or only first exons.
Details
This is a simple way to do that
Value
a GRangesList of cds exons added to ends
See Also
Other uorfs:
filterUORFs(),
removeORFsWithSameStartAsCDS(),
removeORFsWithSameStopAsCDS(),
removeORFsWithStartInsideCDS(),
removeORFsWithinCDS(),
uORFSearchSpace()
JokingHero/ORFik documentation built on Dec. 21, 2024, 12:01 a.m.
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| addCdsOnLeaderEnds | R Documentation |
Extends leaders downstream
Description
When finding uORFs, often you want to allow them to end inside the cds.
Usage
addCdsOnLeaderEnds(fiveUTRs, cds, onlyFirstExon = FALSE)
Arguments
fiveUTRs |
The 5' leader sequences as GRangesList |
cds |
If you want to extend 5' leaders downstream, to catch uorfs going into cds, include it. |
onlyFirstExon |
logical (F), include whole cds or only first exons. |
Details
This is a simple way to do that
Value
a GRangesList of cds exons added to ends
See Also
Other uorfs:
filterUORFs(),
removeORFsWithSameStartAsCDS(),
removeORFsWithSameStopAsCDS(),
removeORFsWithStartInsideCDS(),
removeORFsWithinCDS(),
uORFSearchSpace()
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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