list_genes


    A Gene Ontology (GO) identifier represented in the dataset.
    

go_id


    The output of <code>GO_analyse()</code> or a subset of it obtained from
    <code>subset_scores()</code>.
    

result


    Whether to return only the feature identifiers present in the given
    dataset or alternatively returns all feature identifiers associated with
    the GO term in the Ensembl BioMart. Default is TRUE.
    

data.only


Given a Gene Ontology (GO) identifier represented in the dataset, returns a
character vector listing the feature identifiers annotated to it.


 gene 

 GOexpress 

The package contains methods to visualise the expression profile
of genes from a microarray or RNA-seq experiment, and offers a
supervised clustering approach to identify GO terms containing genes
with expression levels that best classify two or more predefined groups of
samples. Annotations for the genes present in the expression dataset may
be obtained from Ensembl through the biomaRt package, if not provided by
the user. The default random forest framework is used to evaluate the
capacity of each gene to cluster samples according to the
factor of interest. Finally, GO terms are scored by averaging the
rank (alternatively, score) of their respective gene sets to cluster
the samples. P-values may be computed to assess the significance of GO
term ranking. Visualisation function include gene expression profile,
gene ontology-based heatmaps, and hierarchical clustering of
experimental samples using gene expression data.

list_genes: Returns the genes associated with a Gene Ontology

Description

Usage

Arguments

Value

See Also

Examples