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This value sets the maximum phred base quality assigned to a base after recalibrating. Any qualities above this value will be set to this value. It is defaulted to 50.
This value sets the maximum phred base quality assigned to a base after recalibrating. Any qualities above this value will be set to this value. It is defaulted to 50.
== Logistic Regression == (<code>--recabLogReg</code>) ==
== Logistic Regression (<code>--recabLogReg</code>) ==
Use the logistic regression empirical qualities for setting the new base qualities instead of the default formula: -10 * log10((#mismatches+1)/(#total+1))
Use the logistic regression empirical qualities for setting the new base qualities instead of the default formula: -10 * log10((#mismatches+1)/(#total+1))
