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 FlehartyThis 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. |
GATK version 4.6.0.0 built at Sat, 29 Jun 2024 20:47:29 -0400.
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