enrichMOA: MOA Category Enrichment with Hypergeometric Test
In girke-lab/signatureSearch: Environment for Gene Expression Searching Combined with Functional Enrichment Analysis
enrichMOA R Documentation
MOA Category Enrichment with Hypergeometric Test
Description
Given a vector of gene identifiers, this function returns MOA category
enrichment results based on a hypergeometric test with duplication support
in the test set. The universe for the test is set to the unique genes
encoding the target proteins present in the MOA annotation system from the
ChEMBL database.
Usage
enrichMOA(gene, pvalueCutoff = 0.05, pAdjustMethod = "BH", qvalueCutoff = 0.2)
Arguments
gene
a vector of entrez gene ids (here the test set)
pvalueCutoff
pvalue cutoff
pAdjustMethod
one of "holm", "hochberg", "hommel",
"bonferroni", "BH", "BY", "fdr", "none"
qvalueCutoff
qvalue cutoff
Value
A feaResult instance.
See Also
feaResult-class
Examples
data(geneList, package="DOSE")
emoa <- enrichMOA(gene = names(geneList)[seq(3)])
head(emoa)
girke-lab/signatureSearch documentation built on Feb. 21, 2024, 8:32 a.m.
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| enrichMOA | R Documentation |
MOA Category Enrichment with Hypergeometric Test
Description
Given a vector of gene identifiers, this function returns MOA category enrichment results based on a hypergeometric test with duplication support in the test set. The universe for the test is set to the unique genes encoding the target proteins present in the MOA annotation system from the ChEMBL database.
Usage
enrichMOA(gene, pvalueCutoff = 0.05, pAdjustMethod = "BH", qvalueCutoff = 0.2)
Arguments
gene |
a vector of entrez gene ids (here the test set) |
pvalueCutoff |
pvalue cutoff |
pAdjustMethod |
one of "holm", "hochberg", "hommel", "bonferroni", "BH", "BY", "fdr", "none" |
qvalueCutoff |
qvalue cutoff |
Value
A feaResult instance.
See Also
feaResult-class
Examples
data(geneList, package="DOSE")
emoa <- enrichMOA(gene = names(geneList)[seq(3)])
head(emoa)
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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