Description Usage Arguments Note
This method takes a ResultSet
and performs an enrichment on KEGG
pathways or GO terms in base to a given set of genes. Argument
database
allows to select the database where the query will be
performed. sel.pval
allows to select the column of the resulting
table in ResultSet
with the p-value to be used in the process.
Argument th.pval
is used to exclude features using sel.pval
column. Argument sel.feature
indicates the column that has the
gene associated to the feature (row in the table of results).
feature.id
indicates the coding system for the sel.feature
column.
1 2 3 4 5 |
object |
Object of class |
rid |
(default |
fData.tag |
(default |
version |
(default |
database |
(default |
sel.pval |
(default |
th.pval |
(default |
sel.feature |
(default |
feature.id |
(default |
feature.null |
(default |
plot.fit |
(default |
verbose |
(default |
warnings |
(default |
The Gene Ontology Consortium; Gene Ontology Consortium: going forward; Nucl Acids Res (2015).
Ashburner et al.; Gene ontology: tool for the unification of biology; Nat Genet (2000).
Kanehisa M, Furumichi M, Tanabe M, Sato Y, Morishima K; KEGG: new perspectives on genomes, pathways, diseases and drugs. Nucleic Acids Res (2017).
Kanehisa M, Sato Y, Kawashima M, Furumichi M, Tanabe M; KEGG as a reference resource for gene and protein annotation. Nucleic Acids Res (2016).
Kanehisa, M. and Goto, S.; KEGG: Kyoto Encyclopedia of Genes and Genomes. Nucleic Acids Res. 28, 27-30 (2000).
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