Sync template from atomicqms-style deployment

Templates/SOP-Template.md

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+# Standard Operating Procedure: [Title]
+
+| Document ID | SOP-XXX |
+|-------------|---------|
+| Title | [Title] |
+| Revision | 1.0 |
+| Effective Date | [DATE] |
+| Author | [AUTHOR] |
+| Approved By | [APPROVER] |
+| Department | Genetics & Genomics Laboratory |
+
+---
+
+## 1. Purpose
+
+[State the purpose of this procedure]
+
+## 2. Scope
+
+[Define the scope and applicability - e.g., germline testing, somatic testing, specific genes/panels]
+
+## 3. Responsibilities
+
+### 3.1 Laboratory Director
+- [Responsibility]
+- [Responsibility]
+
+### 3.2 Clinical Molecular Geneticist
+- [Responsibility]
+- [Responsibility]
+
+### 3.3 Genetic Counselor
+- [Responsibility]
+- [Responsibility]
+
+### 3.4 Bioinformatician
+- [Responsibility]
+- [Responsibility]
+
+### 3.5 Laboratory Technologist
+- [Responsibility]
+- [Responsibility]
+
+## 4. Definitions
+
+| Term | Definition |
+|------|------------|
+| ACMG | American College of Medical Genetics and Genomics |
+| AMP | Association for Molecular Pathology |
+| VAF | Variant Allele Frequency |
+| VUS | Variant of Uncertain Significance |
+| NGS | Next-Generation Sequencing |
+| SNV | Single Nucleotide Variant |
+| CNV | Copy Number Variant |
+| [Term] | [Definition] |
+
+## 5. Procedure
+
+### 5.1 [Section Title]
+
+[Procedure steps]
+
+### 5.2 [Section Title]
+
+[Procedure steps]
+
+## 6. Quality Control
+
+- [QC checkpoints]
+- [Acceptance criteria]
+- [Monitoring procedures]
+
+## 7. Related Documents
+
+- [List related procedures, forms, etc.]
+- Example: SOP-VI-001: ACMG/AMP Variant Classification
+- Example: FRM-VC-001: Variant Classification Worksheet
+
+## 8. References
+
+### Regulatory References
+- CAP Molecular Pathology Checklist
+- CLIA regulations for high-complexity testing
+- [Applicable state regulations]
+
+### Professional Guidelines
+- ACMG/AMP Standards and Guidelines for the Interpretation of Sequence Variants (2015)
+- ACMG Secondary Findings Recommendations (SF v3.2)
+- [Other applicable guidelines]
+
+### Scientific Literature
+- [Key publications]
+- [Evidence base]
+
+---
+
+## Revision History
+
+| Rev | Date | Description | Author |
+|-----|------|-------------|--------|
+| 1.0 | [DATE] | Initial release | [AUTHOR] |