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  • Overview Legend
  • Run QC Metrics
  • Sample QC Metrics

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  1. Interpret and report

Lab QC Tab

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.

Overview Legend

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.

Run QC Metrics

Run QC Metrics displays metrics used for 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.

Sample QC Metrics

Sample QC Metrics displays metrics used for the sample 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.

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Last updated 20 hours ago

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