TheoreticalSensitivityMetrics

Metrics

Category Metrics

Overview

TheoreticalSensitivityMetrics, are metrics calculated from TheoreticalSensitivity and parameters used in the calculation. These metrics are intended to estimate the achievable sensitivity (for a particular log odds threshold) of somatic calls for a particular depth and base quality score distribution. @author Mark Fleharty

This table summarizes the values that are specific to this metric.

Metric	Summary
ALLELE_FRACTION	The allele fraction which theoretical sensitivity is calculated for.
THEORETICAL_SENSITIVITY	Estimation of sensitivity at a particular allele fraction.
THEORETICAL_SENSITIVITY_Q	Phred-scaled value of 1-THEORETICAL_SENSITIVITY.
LOG_ODDS_THRESHOLD	Log-likelihood ratio is used as a threshold to distinguish a positive site with a given allele fraction from HOM_REF.
SAMPLE_SIZE	Number of samples drawn at each depth in the depth distribution. Larger values allow for increased precision at the cost of compute time.

Return to top

GATK version 4.6.2.0 built at Sun, 13 Apr 2025 13:21:43 -0400.