coyote3

Flow Diagrams

This page provides operational flow diagrams for the most used workflows in Coyote3.

1. Sample Flow

Samples Worklist (/samples)
  -> Open Sample Settings (/samples/<sample_id>/edit)
  -> Apply ISGL / ad-hoc genes
  -> Open DNA or RNA workspace
  -> Review and classify
  -> Preview report
  -> Save report
  -> Sample moves from Live to Done/Reported

2. DNA Flow

/samples
  -> /dna/sample/<sample_id>
  -> load sample + ASPC + schema
  -> compute effective genes from:
       ASP (Assay Specific Panel)
       + ISGL (In Silico Gene List)
       + ad-hoc genes
  -> review SNV/CNV/Translocation
  -> classify/comment/flag
  -> preview report
  -> save report (/dna/sample/<sample_id>/report/save)

3. RNA Flow

/samples
  -> /rna/sample/<sample_id>K=
  -> load sample + RNA config
  -> apply caller/effect thresholds
  -> review fusions
  -> classify / mark FP / comment
  -> preview report
  -> generate PDF report

4. Admin Flow (Operational)

/admin
  -> choose domain:
       Users / Roles / Permissions / ASP / ASPC / ISGL
  -> create or edit configuration
  -> validate schema-required fields
  -> save
  -> validate using smoke sample
  -> verify intended access and runtime behavior

5. End-to-End Flow (Case to Report)

Intake -> Samples -> Settings (ISGL/ad-hoc) -> DNA/RNA interpretation
-> Classification/comments -> Preview -> Final report save/export
-> Report history retrieval
This site is open source. Improve this page.