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gks-anvil

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README.md

Genomic Knowledge Standards for AnVIL

We are scientists and software engineers at Nationwide Children's Hospital and Oregon Health & Sciences University developing libraries and workflows to apply GA4GH Genomic Knowledge Standards to data on the Genomic Analysis, Visualization and Informatics Lab-space (AnVIL) platform.

Projects

Advancing AI-readiness of GREGoR data with GA4GH Genomic Knowledge Standards: transforming GREGoR data into searchable Cohort Allele Frequency objects

Libraries

VRS AnVIL Toolkit: Process and perform VRS-based lookups on VCFs. Retrieve evidence from the VICC MetaKB
VRSix: Construct rapidly-searchable indices for VRS-annotated VCFs

Workflows

VRS Annotator: Terra workflow to annotate VCFs with VRS identifiers
VRSix-workflow: Terra workflow for using VRSix to index VRS-annotated VCFs

Terra Integration

VRS AnVIL Workspace: Terra workspace for workflow access and execution

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vrsix vrsix Public

Rust

Repositories

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All Jupyter Notebook Rust Shell WDL

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Showing 6 of 6 repositories

.github Public

gks-anvil/.github’s past year of commit activity

0 0 0 0 Updated Aug 19, 2025
vrsix Public

gks-anvil/vrsix’s past year of commit activity

Rust 0 MIT 0 9 1 Updated Jul 17, 2025
vrs-annotator Public
Annotates VCF Variants with VRS IDs

gks-anvil/vrs-annotator’s past year of commit activity

Jupyter Notebook 1 0 0 0 Updated Jun 10, 2025
vrsix-workflow Public

gks-anvil/vrsix-workflow’s past year of commit activity

WDL 0 0 2 1 Updated May 9, 2025
vrs_anvil_toolkit Public
Extract clinical variant interpretations from VCF using GA4GH VRS IDs

gks-anvil/vrs_anvil_toolkit’s past year of commit activity

Jupyter Notebook 2 MIT 0 23 (1 issue needs help) 2 Updated Apr 8, 2025
wdl-test Public
Run tests on WDL workflows with GitHub Actions and Dockstore

gks-anvil/wdl-test’s past year of commit activity

Shell 0 MIT 0 0 0 Updated Dec 9, 2024

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