bio-clinical-databases-myvariant-queries SKILL.md skillA
bio-clinical-databases-myvariant-queries from fridrichmethod/awesome-skills is an agent skill: a SKILL.md folder an AI agent loads when a task calls for it.
mdr add fridrichmethod/awesome-skills/bio-clinical-databases-myvariant-queries@git:20260517.81511a7Pins git:20260517.81511a7 in mdr.lock. Pin the fingerprint instead.
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skills/bio-clinical-databases-myvariant-queries/SKILL.md- Versions recorded
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- git:20260517.81511a7, committed May 17, 2026
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- a license file GitHub does not identify
Query myvariant.info API for aggregated variant annotations from multiple databases (ClinVar, gnomAD, dbSNP, COSMIC, etc.) in a single request. Use when annotating variants with clinical and population data from multiple sources simultaneously.
Collected from public GitHub. Every version is saved exactly as it was and never changes. Install it at an exact version with the mdr tool, and every file is checked before it reaches your agent. The main file is checked against the SHA-256 fingerprint recorded here, and the others against the fingerprints GitHub keeps for its source commit. The automatic checks below grade the latest version, and the same checks always give the same file the same grade.
What the file says
## Version Compatibility
Reference examples tested with: SnpEff 5.2+, pandas 2.2+
Before using code patterns, verify installed versions match. If versions differ:
- Python: `pip show <package>` then `help(module.function)` to check signatures
If code throws ImportError, AttributeError, or TypeError, introspect the installed
package and adapt the example to match the actual API rather than retrying.
# MyVariant.info Queries
**"Annotate my variants from multiple databases at once"** → Query the myvariant.info aggregation API to retrieve ClinVar, gnomAD, dbSNP, COSMIC, and other annotations in a single request per variant.
- Python: `myvariant.MyVariantInfo().getvariants(ids, fields='clinvar,gnomad,dbnsfp')`
## Required Imports
```python
import myvariant
```
## Initialize Client
```python
mv = myvariant.MyVariantInfo()
```
## Query Single Variant
**Goal:** Retrieve aggregated annotations for a single variant from multiple databases in one request.
**Approach:** Query myvariant.info by HGVS notation or rsID, which returns ClinVar, gnomAD, dbSNP, COSMIC, and CADD data.
```python
# Query by HGVS notation (recommended)
result = mv.getvariant('chr7:g.140453136A>T')
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How to install
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The registry has recorded 1 version of this file, committed on May 17, 2026.
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Source
fridrichmethod/awesome-skills · 15 stars · license a license file GitHub does not identify · pushed 2026-11-02 · branch main
API
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