The Lab QC tab within a case provides basic assay, workflow, and output metrics. If a case was created from merging DNA and RNA, then DNA and RNA tabs are selectable before the Overview section.
Run QC Metrics displays metrics used for the run as specified in the uploaded metrics file.
Sample QC Metrics displays metrics used for the sample as specified in the uploaded metrics file.
Field Name
Description
Source
Description
Assay
The name of the assay as specified in the uploaded metrics file.
Output Date
The output date of the run as specified in the uploaded metrics file.
Output Time
The output time of the run as specified in the uploaded metrics file.
Workflow Version
The workflow version of the run as specified in the uploaded metrics file.
Module Version
The module version of the run as specified in the uploaded metrics file.
Run ID
The ID of the run as specified in the uploaded metrics file.
Run Name
The name of the run as specified in the uploaded metrics file.
Field Name
Description
Source
Description
Metric
Metrics used for the run as specified in the uploaded metrics file.Examples include total percentage of reads passing filter and Q30 scores.
Lower Spec Limit
Lower specification limit for metric as specified in the uploaded metrics file.
Upper Spec Limit
Upper specification limit for the metric as specified in the uploaded metrics file.
Value
The value of the metric as specified in the uploaded metrics file.
Pass Status
Indicates whether the metric passed the spec limits as specified in the uploaded metrics file.
Field Name
Description
Source
Description
Section
The section for each set of metrics as specified in the uploaded metrics file. Examples include DNA sample QC and RNA sampleQC.
Group
The group for the metrics as specified in the uploaded metrics file(for example, read group).
Metric
Metrics used for the sample as specified in the uploaded metrics file. Examples include median exon coverage and median fragment length.
Lower Spec Limit
Lower specification limit for the metric as specified in the uploaded metrics file.
Upper Spec Limit
Upper specification limit for the metric as specified in the uploaded metrics file.
Sample/Pair ID
The sample/pair ID of the case.