rgsets: A relational genesets object
In montilab/hypeR: An R Package For Geneset Enrichment Workflows
rgsets R Documentation
A relational genesets object
Description
A relational genesets object
A relational genesets object
See Also
gsets
Public fields
genesetsA list of genesets where list names refers to geneset labels and values are geneset members represented as a vector
nodesA data frame of labeled nodes
edgesA data frame of directed edges
nameA character vector describing source of genesets
versionA character vector describing versioning
Methods
Public methods
Method new()
Create a rgsets object
Usage
rgsets$new(
genesets,
nodes,
edges,
name = "Custom",
version = "",
quiet = FALSE
)
Arguments
genesetsA list of genesets where list names refers to geneset labels and values are geneset members represented as a vector
nodesA data frame of labeled nodes
edgesA data frame of directed edges
nameA character vector describing source of genesets
versionA character vector describing versioning
quietUse true to silence warnings
Returns
A new rgsets object
Method print()
Print relational genesets information
Usage
rgsets$print()
Returns
NULL
Method info()
Returns versioning information
Usage
rgsets$info()
Returns
A character vector with name and version
Method reduce()
Reduces genesets to a background distribution of symbols
Usage
rgsets$reduce(background)
Arguments
backgroundA character vector of symbols
Returns
A rgsets object
Method subset()
Subsets genesets on a character vector of labels
Usage
rgsets$subset(labels)
Arguments
labelsA character vector of genesets
Returns
A rgsets object
Method clone()
The objects of this class are cloneable with this method.
Usage
rgsets$clone(deep = FALSE)
Arguments
deepWhether to make a deep clone.
montilab/hypeR documentation built on Oct. 29, 2023, 12:01 p.m.
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| rgsets | R Documentation |
A relational genesets object
Description
A relational genesets object
A relational genesets object
See Also
gsets
Public fields
genesetsA list of genesets where list names refers to geneset labels and values are geneset members represented as a vector
nodesA data frame of labeled nodes
edgesA data frame of directed edges
nameA character vector describing source of genesets
versionA character vector describing versioning
Methods
Public methods
Method new()
Create a rgsets object
Usage
rgsets$new( genesets, nodes, edges, name = "Custom", version = "", quiet = FALSE )
Arguments
genesetsA list of genesets where list names refers to geneset labels and values are geneset members represented as a vector
nodesA data frame of labeled nodes
edgesA data frame of directed edges
nameA character vector describing source of genesets
versionA character vector describing versioning
quietUse true to silence warnings
Returns
A new rgsets object
Method print()
Print relational genesets information
Usage
rgsets$print()
Returns
NULL
Method info()
Returns versioning information
Usage
rgsets$info()
Returns
A character vector with name and version
Method reduce()
Reduces genesets to a background distribution of symbols
Usage
rgsets$reduce(background)
Arguments
backgroundA character vector of symbols
Returns
A rgsets object
Method subset()
Subsets genesets on a character vector of labels
Usage
rgsets$subset(labels)
Arguments
labelsA character vector of genesets
Returns
A rgsets object
Method clone()
The objects of this class are cloneable with this method.
Usage
rgsets$clone(deep = FALSE)
Arguments
deepWhether to make a deep clone.
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Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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