Analysis Results table overview

MyVariants updates the customized MyVariants database.

Download allows you to download variant files. Files that you can download:

• Compressed file that contains data files including a VCF file with all variants.

• Compressed file that contains data files including a VCF file with filtered-in variants.

• TSV file of the current results shown.

• Compressed file that contains data files including a VCF file with only selected variants.

For more information, see Variants file downloads.

Visualize allows you to view the data in Ion Reporter™ Genomic Viewer (IRGV) or Integrative Genomics Viewer (IGV). For more information, see Visualize analysis results with Ion Reporter Software.

Options in the Selected Variants dropdown menu:

• Add or remove variants from the MyVariants database.

• Order a TaqMan™ assay for SNP genotyping the variant directly from thermofisher.com. Only assays specific for the selected locus are displayed.

• Classify variants. For more information, see Classify variants in analysis results.

• Order capillary electrophoresis primers specific for the selected variant or variants directly from thermofisher.com. Only primers specific for the selected locus are displayed.

• Hide the selected variants. For more information, see Hide or Unhide variants in Analysis Results list.

The Selected Variants dropdown menu is only enabled when at least one variant is selected.

Send to Report Role allows you to send an analysis to someone in the organization who has the Report role in Ion Reporter™ Software. A person with the Report role can then generate a report. For more information, see Send an analysis to the Report role.

Switch to options:

• Audit log opens the audit log. For more information, see Audit logs.

• QC Report opens the quality control report. For more information, see Quality Control (QC) reports.

• Coverage Report opens the Amplicon Coverage Report. For more information, see Amplicon coverage reports.

Generate Report allows you to create a final report. For more information, see Final reports.

Analysis details, including the analysis name, are listed. You can hover over the listed parameters and values for definitions and to show values if they are cropped due to space limits. The details that are shown depend on the workflow used.

The Summary provides a summary of the analysis results.

Oncomine™ provides Oncomine™ variant class annotations.

Fusions provides a fusions view of the analysis results. For more information, see Display different views of analysis results.

Functional provides a functional view of the analysis results. For more information, see Display different views of analysis results.

Population provides a population view of the analysis results. For more information, see Display different views of analysis results.

Ontologies provides an ontologies view of the analysis results. For more information, see Display different views of analysis results.

Pharmacogenomics provides a pharmacogenomics view of the analysis results. For more information, see Display different views of analysis results.

QC provides a quality control view of the analysis results. For more information, see Display different views of analysis results.

The Search box allows you to enter keywords or text strings to limit the analyses listed.

Table preferences. For more information, see Apply an Analysis Results table preference.

Filter Options:

• Change to view to show only Filtered In Variants, Hidden Variants, or Filtered out Variants. For more information, see Apply a filter chain to analysis results.

• Show variants for a single chromosome. For more information, see Show variants for a single chromosome.

• Apply a filter chain and save the filter chain so that when you reopen the analysis again, the newly saved filter chain is applied. For more information, see Apply a filter chain to analysis results.

The help guide link opens the software help menu.

(Checkbox)—Used to select variants.

(Variant Details)—Used to view a variant detail card.

(Flag)—Used to flag and select variants for the MyVariants database. For more information, see Apply flags, notes, or classifications to variants of interest.