PPE-accessors {PhosR} | R Documentation |
These are methods for getting for setting accessors of
PhosphoExperiment
object.
This provides some convenience for users.
UniprotID(x, ...) UniprotID(x) <- value GeneSymbol(x, ...) GeneSymbol(x) <- value Site(x, ...) Site(x) <- value Residue(x, ...) Residue(x) <- value Sequence(x, ...) Sequence(x) <- value Localisation(x, ...) Localisation(x) <- value ## S4 method for signature 'PhosphoExperiment' UniprotID(x, withDimnames = TRUE) ## S4 method for signature 'PhosphoExperiment' GeneSymbol(x, withDimnames = TRUE) ## S4 method for signature 'PhosphoExperiment' Site(x, withDimnames = TRUE) ## S4 method for signature 'PhosphoExperiment' Residue(x, withDimnames = TRUE) ## S4 method for signature 'PhosphoExperiment' Sequence(x, withDimnames = TRUE) ## S4 method for signature 'PhosphoExperiment' Localisation(x, withDimnames = TRUE) ## S4 replacement method for signature 'PhosphoExperiment' UniprotID(x) <- value ## S4 replacement method for signature 'PhosphoExperiment' GeneSymbol(x) <- value ## S4 replacement method for signature 'PhosphoExperiment' Site(x) <- value ## S4 replacement method for signature 'PhosphoExperiment' Residue(x) <- value ## S4 replacement method for signature 'PhosphoExperiment' Sequence(x) <- value ## S4 replacement method for signature 'PhosphoExperiment' Localisation(x) <- value
x |
A |
... |
Ignored for accessors. |
value |
A vector of values to set to respective accessor. See section
|
withDimnames |
A |
In the following code snippets, ppe
is a
PhosphoExperiment object.
UniprotID(ppe)
, UniprotID(ppe) <- value
:Get or set a Uniprot ID, where value
is a character
vector
GeneSymbol(ppe)
, GeneSymbol(ppe) <- value
:Get or set a gene symbol , where value
is a character
vector
Site(ppe)
, Site(ppe) <- value
:Get or set a phosphorylation site, where value
is a
numeric vector
Residue(ppe)
, Residue(ppe) <- value
:Get or set a residue of phosphorylation site, where value
is a
character
Sequence(ppe)
, Sequence(ppe) <- value
:Get or set a sequence, where value
is a character vector
Localisation(ppe)
, Localisation(ppe) <- localisation
:Get or set a localisation score, where localisation
is a numeric
vector
Taiyun Kim
example(PhosphoExperiment, echo = FALSE) UniprotID(phosData) <- uniprot head(UniprotID(phosData)) GeneSymbol(phosData) <- symbol head(GeneSymbol(phosData)) Site(phosData) <- site head(Site(phosData)) Residue(phosData) <- res head(Residue(phosData)) Sequence(phosData) <- seq head(Sequence(phosData)) Localisation(phosData) <- rnorm(nrow(phosData)) head(Localisation(phosData))