Metrics
This table summarizes the values that are specific to this metric.
| Metric | Summary |
|---|---|
| LIBRARY | Library that was used to generate UMI data. |
| MEAN_UMI_LENGTH | Number of bases in each UMI |
| OBSERVED_UNIQUE_UMIS | Number of different UMI sequences observed |
| INFERRED_UNIQUE_UMIS | Number of different inferred UMI sequences derived |
| OBSERVED_BASE_ERRORS | Number of errors inferred by comparing the observed and inferred UMIs |
| DUPLICATE_SETS_IGNORING_UMI | Number of duplicate sets found before taking UMIs into account |
| DUPLICATE_SETS_WITH_UMI | Number of duplicate sets found after taking UMIs into account |
| OBSERVED_UMI_ENTROPY | Entropy (in base 4) of the observed UMI sequences, indicating the effective number of bases in the UMIs. If this is significantly smaller than UMI_LENGTH, it indicates that the UMIs are not distributed uniformly. |
| INFERRED_UMI_ENTROPY | Entropy (in base 4) of the inferred UMI sequences, indicating the effective number of bases in the inferred UMIs. If this is significantly smaller than UMI_LENGTH, it indicates that the UMIs are not distributed uniformly. |
| UMI_BASE_QUALITIES | Estimation of Phred scaled quality scores for UMIs |
| PCT_UMI_WITH_N | The percentage of reads that contain an UMI that contains at least one N |
See also General Documentation | Tool Docs Index Tool Documentation Index | Support Forum
GATK version 4.6.2.0 built at Sun, 13 Apr 2025 13:21:43 -0400.