Description Usage Arguments Value Author(s) See Also
Function draws and colors the gene ontology DAG of input GO terms depending on input parameters and saves it as PlotFile.
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Adj |
Adjacency matrix of GO terms where Adj[i,j]==1 iff i is parent of j. |
GOtermIDs |
GO term IDs, e.g. "GO:0008150". |
PlotFile |
Name of the output file. Extension determines the output format, one of png, eps, svg or pdf. Default output format: png. |
PlotDirectory |
Output directory. Default: getwd(). |
Significant |
Terms with |
IsHeadline |
Terms with |
MarkDetails |
Set TRUE if details of the dag should be coloured blue. Default: TRUE. |
Overwrite |
Set TRUE if files in |
GOtermString |
GO term strings, e.g "biological_process". If not given (NULL), GO term strings will be generated automatically. |
Remarkable |
Remarkable value of GO terms. See also |
Pvalues |
P-values of GO terms. Default: NULL. |
NrGenesInTerm |
The number of annotated genes for each GO term. Default: NULL |
Observed |
Number of observed annotations for each GO term. Default: NULL. |
Expected |
Number of statistically expected annotations for each GO term. Default: NULL. |
Importance |
Importance value of GO terms. Default: NULL. |
Up |
If there are more than the expected number of genes annotated to the GO term, |
PlotFile in PlotDirectory with DAG of input GO terms.
CL
For further details about coloring, please see drawORA
.
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