Output from the Identify and Annotate Variants (WES-HD) workflow
- Read Mapping (
) The mapped sequencing reads. The reads are shown in different colors depending on their orientation, whether they are single reads or paired reads, and whether they map unambiguously (see http://resources.qiagenbioinformatics.com/manuals/clcgenomicsworkbench/current/index.php?manual=Coloring_mapped_reads.html).
- Target Regions Coverage (
) The target regions coverage track shows the coverage of the targeted regions. Detailed information about coverage and read count can be found in the table format, which can be opened by pressing the table icon found in the lower left corner of the View Area.
- Target Regions Coverage Report (
) The report consists of a number of tables and graphs that in different ways provide information about the targeted regions.
- Two variant tracks (
): the Idenitified variants track contains the variants detected by the Fixed Ploidy Variant Caller, the Indels indirect evidence track those detected by the Structural Variant Caller (see
.
http://resources.qiagenbioinformatics.com/manuals/clcgenomicsworkbench/current/index.php?manual=_annotated_variant_table.html for a definition of the variant table content). The variants can be shown in track format or in table format. When holding the mouse over the detected variants in the Track List, a tooltip appears with information about the individual variants. You will have to zoom in on the variants to be able to see the detailed tooltip.
- An Amino Acid Track Shows the consequences of the variants at the amino acid level in the context of the original amino acid sequence. A variant introducing a stop mutation is illustrated with a red amino acid.
- Genome Browser View (
) A collection of tracks presented together. Shows the human reference sequence, genes, transcripts, coding regions, the mapped reads, the identified variants, and the indels indirect evidence variants (see figure 19.5).