Metrics
Category Metrics
Overview
This table summarizes the values that are specific to this metric.
| Metric | Summary |
|---|---|
| CHIP_WELL_BARCODE | The chip well barcode of the Illumina array being assayed |
| SAMPLE_ALIAS | The name of the sample |
| ANALYSIS_VERSION | The version number of the analysis run |
| CHIP_TYPE | The chip type name |
| AUTOCALL_PF | Whether the sample passes QC based on call rate threshold |
| AUTOCALL_DATE | The date this sample was autocalled |
| IMAGING_DATE | The date that this sample was imaged |
| IS_ZCALLED | Whether the sample was zcalled |
| GTC_CALL_RATE | The call rate as determined by Autocall/IAAP (and stored in the GTC File) |
| AUTOCALL_GENDER | The sex, as determined by Autocall |
| FP_GENDER | The sex, as reported for the fingerprinted sample |
| REPORTED_GENDER | The sex, as reported by the collaborator |
| GENDER_CONCORDANCE_PF | Whether or not the three sexs agree |
| HET_PCT | 100 * (count of hets) / (total calls) for this sample |
| CLUSTER_FILE_NAME | The name of the cluster file used |
| P95_GREEN | The 95th Intensity Percentile for the green color channel for this sample |
| P95_RED | The 95th Intensity Percentile for the red color channel for this sample |
| AUTOCALL_VERSION | The version of autocall used for calling this sample |
| ZCALL_VERSION | The version of ZCall used for calling this sample |
| EXTENDED_MANIFEST_VERSION | The version of the Extended Illumina Manifest used for calling this sample |
| HET_HOMVAR_RATIO | (count of hets)/(count of homozygous non-ref) for this sample |
| SCANNER_NAME | The name of the scanner used for this sample |
| PIPELINE_VERSION | The version of the pipeline used for this sample |
GATK version 4.6.0.0 built at Sat, 29 Jun 2024 20:47:29 -0400.
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