Site search result optimization (analysis)

Tune matrix weights to minimize p-values

Parameters:

• Input yes track – Site search result for genes expressed in experiment
• Input no track – Site search result for background genes
• P-value cutoff – Matrix will be removed from result if p-value cannot be optimized to values lower than specified cutoff
• Optimization type – Whether to optimize only matrix cutoffs, promoter windows or both
• Output yes track – Filtered site search result for expressed genes
• Output no track – Filtered site search result for background genes
• Overrepresented matrices in summary – Remove underrepresented matrices from the output (not applicable if no-set is not specified)
• Output name – Output name