User Guide to Oncomine Automation

Workflow from run initiation to review of annotated variants

• Annotate variants from oncomine annotator
• Focus on variants of interest
• Visualize and interpret variants
• Link variants to relevant clinical evidence

Software required:

1. python3

Python is a high-level, interpreted, general-purpose programming language. It is used to execute automate tasks and conduct data analysis.

2. watchdog

Python API library and shell utilities to monitor file system events.

3. ion_automation

The automated workflow to generate quality control plots/reports and select variants from Oncomine Focus and Myeloid Assay NGS sequencing data.

Workflow Diagram

Directory Structure

|— amplicon.dropout.dropoff 
|— downloads
|- dropoff
|- reports