enrichFullGeneList: Perform functional enrichment on a pair of "up"- and "down"-...
In compbiomed/enrichR: R Interface to Enrichr API
Description
This function wraps enrichGeneList to call Enrichr to perform functional enrichment tests on
the provided gene lists, for the databases specified in the databases argument.
Separate analyses are run on upregulated and downregulated genes, the returned results are rbind'ed.
Databases are specified as seen in the web interface, with underscores for spaces
(e.g. "WikiPathways_2016", "KEGG_2016", "GO_Biological_Process"). See http://amp.pharm.mssm.edu/Enrichr/#stats
for more databases.
Usage
1
2
enrichFullGeneList(up.genes, dn.genes, databases = "KEGG_2016",
fdr.cutoff = 0.1)
Arguments
up.genes
a list of up-regulated gene symbols
dn.genes
a list of down-regulated gene symbols
databases
a character vector of Enrichr-fronted databases. Default: KEGG_2016
fdr.cutoff
An FDR (adjusted p-value) threshold by which to limit the list of enriched pathways.
Default = 0.1
compbiomed/enrichR documentation built on May 13, 2019, 9:55 p.m.
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Description
This function wraps enrichGeneList to call Enrichr to perform functional enrichment tests on the provided gene lists, for the databases specified in the databases argument. Separate analyses are run on upregulated and downregulated genes, the returned results are rbind'ed. Databases are specified as seen in the web interface, with underscores for spaces (e.g. "WikiPathways_2016", "KEGG_2016", "GO_Biological_Process"). See http://amp.pharm.mssm.edu/Enrichr/#stats for more databases.
Usage
1 2 | enrichFullGeneList(up.genes, dn.genes, databases = "KEGG_2016",
fdr.cutoff = 0.1)
|
Arguments
up.genes |
a list of up-regulated gene symbols |
dn.genes |
a list of down-regulated gene symbols |
databases |
a character vector of Enrichr-fronted databases. Default: KEGG_2016 |
fdr.cutoff |
An FDR (adjusted p-value) threshold by which to limit the list of enriched pathways. Default = 0.1 |
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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