TOMTOM e-value

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Jewel Todd

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Jul 13, 2020, 3:38:32 PM7/13/20

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Why is the default e-value for the TOMTOM tool "<10"? It seems really high to me to give accurate results..Does anyone recommend using a smaller value?

cegrant

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Jul 13, 2020, 3:56:26 PM7/13/20

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The default E-value for Tomtom is very relaxed as it is often used as a screening tool to spot general similarities to known motifs. The input motif is sometime "cleaned up" after spotting a partial match to a known motif.

When you get to the stage of wanting to claim a match to a known motif you should definitely use a more stringent E-value. An E-value of 0.05 or lower is the traditional threshold for statistical significance.

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