Analysis Output | Analysis Reports | Sample Reports | Coverage Summary

Coverage Summary

If a panel is selected, the app calculates the coverage information based on the on-target genes.

Table 13   Coverage Uniformity Information Table

Statistic

Definition

Median CV

The median coefficient of variation of coverage of the 1000 most highly expressed transcripts, as reported by the CollectRnaSeqMetrics utility from Picard tools. Ideal value = 0.

Median 3'

The median uniformity of coverage of the 1000 most highly expressed transcripts at the 3' end, as reported by the CollectRnaSeqMetrics utility from Picard tools.

3' bias is calculated per transcript as the mean coverage of the 3' most 100 bases divided by the mean coverage of the whole transcript.

Median 5'

The median uniformity of coverage of the 1000 most highly expressed transcripts at the 5' end, as reported by the CollectRnaSeqMetrics utility from Picard tools.

5' bias is calculated per transcript as the mean coverage of the 5' most 100 bases divided by the mean coverage of the whole transcript.

Reads aligned to correct strand

Percentage of reads that align to the correct strand, as reported by the CollectRnaSeqMetrics utility from Picard tools.

If a panel is selected, the app calculates the gene-level coverage information based on the on-target genes.

Table 14   Gene-Level Coverage Table

Coverage

Number of Genes

1X

Number of genes covered at the mean base coverage level or deeper.

10X

30X

100X