Outputs from Fastq to Germline Variants (WGS)
The Fastq to Germline Variants (WGS) template workflow produces the following outputs:
- Read Mapping A read mapping track (
).
- Germline Variants A variant track (
) with the annotated variants.
- Inversions An annotation track (
) providing the called inversions.
- LightSpeed Report A report (
) summarizing details of each analysis step performed by the LightSpeed Fastq to Germline Variants tool.
- Read Mapping Report A report () summarizing QC metrics, including coverage, for the read mapping.
- Sample Report A report () that contains compiled QC metrics from other reports and provides an overview of a given sample. The report contains a quality control section reflecting the summary items specified in the Create Sample Report wizard step.
- Amino Acid Track A track (
) providing a graphical representation of identified amino acid changes.
- Genome Browser View A track list (
) containing the Germline Variants, the Amino Acid Track, the Read Mapping as well as the Reference sequence and the Genes, mRNA and CDS tracks.
The Amino Acid Track is produced by Amino Acid Changes (https://resources.qiagenbioinformatics.com/manuals/clcgenomicsworkbench/current/index.php?manual=Amino_Acid_Changes.html).
The Read Mapping Report is produced by QC for Read Mapping (https://resources.qiagenbioinformatics.com/manuals/clcgenomicsworkbench/current/index.php?manual=QC_Read_Mapping.html).