RemoveCrypticSS: Remove cryptic alternative 5' and 3' splice site (A5/3SS)
In wenweixiong/MARVEL: Revealing Splicing Dynamics at Single-Cell Resolution
View source: R/Script_PLATE_03_DETECT_EVENTS_3_0_RemoveCrypticSS.R
RemoveCrypticSS R Documentation
Remove cryptic alternative 5' and 3' splice site (A5/3SS)
Description
Subset A5SS and A3SS splicing events from alternative first and last exon (AFE, ALE), respectively, whose distance to the canonical are within a user-defined distance.
Usage
RemoveCrypticSS(MarvelObject, DistanceToCanonical = 100, EventType)
Arguments
MarvelObject
Marvel object. S3 object generated from CreateMarvelObject function.
DistanceToCanonical
Numeric value. Distance between alternative and canonical splice site, below which, the alternative splice site will be defined as cryptic and removed.
EventType
Character string. Type of splicing event. Only applicable to "A5SS" or "A3SS".
Value
An object of class S3 with updated slot $SpliceFeature$AFE or $SpliceFeature$ALE and new slot $DistanceToCanonical$AFE or $DistanceToCanonical$ALE.
wenweixiong/MARVEL documentation built on Aug. 5, 2024, 2:54 p.m.
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.
View source: R/Script_PLATE_03_DETECT_EVENTS_3_0_RemoveCrypticSS.R
| RemoveCrypticSS | R Documentation |
Remove cryptic alternative 5' and 3' splice site (A5/3SS)
Description
Subset A5SS and A3SS splicing events from alternative first and last exon (AFE, ALE), respectively, whose distance to the canonical are within a user-defined distance.
Usage
RemoveCrypticSS(MarvelObject, DistanceToCanonical = 100, EventType)
Arguments
MarvelObject |
Marvel object. S3 object generated from |
DistanceToCanonical |
Numeric value. Distance between alternative and canonical splice site, below which, the alternative splice site will be defined as cryptic and removed. |
EventType |
Character string. Type of splicing event. Only applicable to |
Value
An object of class S3 with updated slot $SpliceFeature$AFE or $SpliceFeature$ALE and new slot $DistanceToCanonical$AFE or $DistanceToCanonical$ALE.
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.
Embedding an R snippet on your website
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.