makeRegulatorGraph: produce a graph that summarizes regulator-module...
In vjcitn/amarettoTools: tools for working with AMARETTO outputs
Description
Usage
Arguments
Value
Note
Examples
Description
produce a graph that summarizes regulator-module relationships
Usage
1
makeRegulatorGraph(dataFolder = ".", modpatt = "^Module_")
Arguments
dataFolder
character(1) specifying location of regulators
and gene_expression CSV files by module, with filenames of form
'Module_[n]_...' by default; other filename formats can be
specified by modpatt parameter. '_gene_expression.csv' and
'_regulators.csv' are the assumed suffixes.
modpatt
character(1) regular expression used to pick out the CSV files
Value
instance of graph::graphNEL, mode 'directed'
Note
The returned graph has regulators, module names,
and module gene symbols as nodes. A module has edges to
all member genes, and a regulator has edges to all modules
that it regulates.
Examples
1
2
data(regulGBM)
regulGBM
vjcitn/amarettoTools documentation built on May 20, 2019, 12:32 p.m.
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Description Usage Arguments Value Note Examples
Description
produce a graph that summarizes regulator-module relationships
Usage
1 | makeRegulatorGraph(dataFolder = ".", modpatt = "^Module_")
|
Arguments
dataFolder |
character(1) specifying location of regulators and gene_expression CSV files by module, with filenames of form 'Module_[n]_...' by default; other filename formats can be specified by modpatt parameter. '_gene_expression.csv' and '_regulators.csv' are the assumed suffixes. |
modpatt |
character(1) regular expression used to pick out the CSV files |
Value
instance of graph::graphNEL, mode 'directed'
Note
The returned graph has regulators, module names, and module gene symbols as nodes. A module has edges to all member genes, and a regulator has edges to all modules that it regulates.
Examples
1 2 | data(regulGBM)
regulGBM
|
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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