getVarGrams: Get actual grams for an abbreviation
In BMILAB/movAPA: movAPA: Modeling and Visualization of Dynamics of Alternative PolyAdenylation
getVarGrams R Documentation
Get actual grams for an abbreviation
Description
getVarGrams returns a vector of grams given an abbreviation.
Usage
getVarGrams(grams)
Arguments
grams
a character string (e.g., V1, v1, MOUSE, mouse, mm10, mm) or a string vector.
V1 means AATAAA and its variants; MOUSE means hexamers of polyA signals in mouse.
Mouse signals are obtained from https://polyasite.unibas.ch/atlas#2, which reside in a region of 60 nt upstream to 10 nt downstream of one of the poly(A) sites of a cluster.
Details
This function is used to get common grams.
Value
A vector of grams.
See Also
Other APA signal functions:
annotateByPAS(),
faFromPACds(),
kcount(),
plotATCGforFAfile(),
plotSeqLogo()
Examples
## get AATAAA and its variants
getVarGrams('v1')
## get mouse hexamers
getVarGrams('mm')
## not doing anything
getVarGrams(c('AATAAA','AATT'))
BMILAB/movAPA documentation built on Jan. 3, 2024, 11:09 p.m.
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| getVarGrams | R Documentation |
Get actual grams for an abbreviation
Description
getVarGrams returns a vector of grams given an abbreviation.
Usage
getVarGrams(grams)
Arguments
grams |
a character string (e.g., V1, v1, MOUSE, mouse, mm10, mm) or a string vector. V1 means AATAAA and its variants; MOUSE means hexamers of polyA signals in mouse. Mouse signals are obtained from https://polyasite.unibas.ch/atlas#2, which reside in a region of 60 nt upstream to 10 nt downstream of one of the poly(A) sites of a cluster. |
Details
This function is used to get common grams.
Value
A vector of grams.
See Also
Other APA signal functions:
annotateByPAS(),
faFromPACds(),
kcount(),
plotATCGforFAfile(),
plotSeqLogo()
Examples
## get AATAAA and its variants
getVarGrams('v1')
## get mouse hexamers
getVarGrams('mm')
## not doing anything
getVarGrams(c('AATAAA','AATT'))
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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