Metrics
Category Metrics
Overview
Summary metrics produced by {@link CollectSequencingArtifactMetrics} as a roll up of the context-specific error rates, to provide global error rates per type of base substitution. Errors are normalized to the lexically lower reference base and summarized together. E.g. G>T is converted to C>A and merged with data from C>A for reporting.This table summarizes the values that are specific to this metric.
| Metric | Summary |
|---|---|
| REF_BASE | The reference base (or it's complement). |
| ALT_BASE | The alternative base (or it's complement). |
| SUBSTITUTION | A single string representing the substition from REF_BASE to ALT_BASE for convenience. |
| REF_COUNT | The number of reference bases observed. |
| ALT_COUNT | The number of alt bases observed. |
| SUBSTITUTION_RATE | The rate of the substitution in question. |
GATK version 4.5.0.0 built at Tue, 9 Jan 2024 14:37:17 -0500.
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