Output from Analyze QIAseq Multimodal RNA Library Kit
The following outputs are generated:
- Gene expression (
): Track with counts and expression values for each gene.
The track produced by the Analyze QIAseq Hybrid Capture RNA (Illumina) workflow contains only the genes targeted by the QIAseq xHYB CGP RNA Panel.
- Genome browser view (
): Collection of output tracks, allowing multiple data types at the same genomic position to be viewed simultaneously. Note that not all output tracks are necessarily in the browser. Tracks can be added and removed from the browser.
If detecting fusions, two browsers are generated, one for wild type (WT) and one for the artificial fusion chromosomes.
- Sample report (
): Sample report containing essential information from all reports produced by the workflow.
- Additionally, if detecting fusions:
- Fusion genes (WT) (
): Breakpoints on the reference genome of all detected fusions.
- Fusion genes (WT) (
- Additionally, if preparing for QCI Interpret:
- QCI Interpret report (): Report prepared for uploading to QCI Interpret and QCI Interpret Translational.
- QCI Interpret report (
- QC & Reports folder:
- QC report (
): Summarizes and visualizes various statistics of the input reads.
- Remove and annotate UMI report (): Summarizes the identified UMIs.
- RNA-Seq report (): Summarizes various mapping statistics and biotypes distributions.
- rRNA expression report (): Summarizes the percent of the total RNA expression originating from different rRNAs.
- Trim adapters, Trim homopolymers, and Trim on quality reports (): Summarize the performed trimming. The order of these three trimming steps can be seen in the sample report.
- UMI reads report (): Summarizes the UMI reads.
- Additionally, if detecting fusions:
- Fusion report (): Summarizes the identified fusions.
- Fusion report (
- QC report (
- Tracks folder:
- Read mapping (
): Reads mapped to the reference genome.
- Additionally, if running the Analyze QIAseq Hybrid Capture RNA (Illumina) workflow:
- Gene expression unfiltered (): Unfiltered track with counts and expression values for each gene.
- Gene expression unfiltered (
- WT:
- Read mapping (WT) (): Reads that mapped best to the reference genome during fusion detection. See also Read mapping (fusions) below.
- Unaligned ends (WT) (): Unaligned ends mapped to the reference genome.
- Read mapping (WT) (
- Fusions:
- Fusion genes (fusions) (): Breakpoints on the artificial fusion chromosomes of all detected fusions.
- Read mapping (fusions) (): Reads that mapped best to the artificial fusion chromosomes during fusion detection.
- Reference sequence (fusions) (
), Genes (fusions) (), mRNA (fusions) (), and CDS (fusions) (): Reference sequence, gene regions, mRNA transcripts, and CDS regions corresponding to the detected fusions on the artificial fusion chromosomes.
- Fusion genes (fusions) (
- Read mapping (