Description Usage Arguments Details Value
pipeTopGO
Methods to simplify running limma::topGO from a table-like
GO annotation database.
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genes.of.interest |
A character vector representing the genes that are to be tested. |
GO.db |
The GO database in tabular format. One column must contain the unique gene identifier. Gene IDs must not be replicated. Multiple GO terms must be separated by comma (or similar) in a single dataframe column. |
GO.db.colname |
The name of the column that contains the GO terms |
GO.db.geneIDs |
The name of the GO.db column that contains the unique gene identifier |
GO.db.sep |
The character that separates GO terms. |
cull2genes |
Specify if the background to test should be a gene set other than the entire GO database |
output |
Should the output be culled so that GO terms with P values equal to 1 are not returned. |
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A tabular presentation of GO terms and the resulting statistics
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