Output from the Quantify QIAseq UPX 3' workflow
The Quantify QIAseq UPX 3' workflow generates the following outputs:
- A Gene Expression track (
) A track showing gene expression annotations and that can be used in subsequent analyses. If you have zoomed in to nucleotide level, a tooltip will appear with information about gene name and expression values. See http://resources.qiagenbioinformatics.com/manuals/clcgenomicsworkbench/current/index.php?manual=Expression_tracks.html.
- Two trimming reports - see http://resources.qiagenbioinformatics.com/manuals/clcgenomicsworkbench/current/index.php?manual=Trim_output.html. One is generated after trimming short polyA sequences from the middle of R1 and discarding R2. The second is issued after trimming polyA from R1.
- A UMI Group report (
) containing a breakdown of UMI groups with different number of reads, along with percentage of groups and reads (see Calculate Unique Molecular Index Groups).
- A UMI Group Creation report () that indicates how many reads were ignored and the reason why they were not included in a UMI read (see Create UMI Reads from Grouped Reads).
- A RNA-Seq report () - see http://resources.qiagenbioinformatics.com/manuals/clcgenomicsworkbench/current/index.php?manual=RNA_Seq_report.html. You can run the tool Combine Reports to perform quality control of all RNA-Seq reports generated in one glance.
Use Gene Expression tracks to perform Differential Expression. If the analysis is set up as a single-cell experiment, a clustering of the data could provide more insights. All the tools available for downstream analyses can be found in the RNA-seq Analysis folder of the Toolbox.