Skills
Certifiable skills with defined inputs, outputs, and human-oversight requirements.
24 of 24 entries shown
AWS Kiro Clinical Interoperability skill
Marginal fit: a Kiro steering-file guide (not an executable tool) to FHIR, HL7 v2, and OMOP CDM, including mapping genomic variants into FHIR Observation/DiagnosticReport resources.
bioSkills ACMG Classification skill
Applies the ACMG/AMP 2015 framework with ClinGen SVI specifications and the Tavtigian Bayesian point system to classify germline variants P/LP/VUS/LB/B, with a full evidence trail.
ClawBio PharmGx Reporter skill
Generates a CPIC-guideline pharmacogenomic report (12 genes, 31 SNPs, 51 drugs) from a 23andMe or AncestryDNA raw genotype export.
ga4gh-beacon skill
Query a GA4GH Beacon v2 endpoint for genomic variants, individuals, biosamples, analyses, runs, cohorts, and datasets, follow its cross-entity links, and read its metadata and filtering vocabulary
ga4gh-crypt4gh skill
Structurally validate a GA4GH Crypt4GH file header (magic bytes, version, packet-length accounting) from base64-encoded bytes
ga4gh-data-connect skill
Query a GA4GH Data Connect endpoint (https://github.com/ga4gh-discovery/data-connect) by running a SQL search against its /search API, or list and browse its tables directly
ga4gh-drs skill
Fetch a GA4GH Data Repository Service (DRS) object's metadata (https://github.com/ga4gh/data-repository-service-schemas) by object id from a configured DRS endpoint, and download the object bytes from
ga4gh-gks skill
Meta-skill for the GA4GH Genomic Knowledge Standards (GKS) suite — mounts the bundled ga4gh-vrs plugin and lists which GKS-family standards this suite currently bundles
ga4gh-htsget skill
Request GA4GH htsget tickets (byte-range URLs) for reads or variants from a configured htsget server
ga4gh-passport skill
Validate GA4GH Passport visas (encoded JWT strings) against a configured GA4GH Passport clearinghouse and report per-passport authorization
ga4gh-pedigree skill
Structurally validate a GA4GH pedigree document (a family-structure record of members and their parent relationships)
ga4gh-phenopackets skill
Structurally validate a GA4GH Phenopacket v2 document (a schema for sharing clinical phenotype and disease data linked to genomic findings)
ga4gh-refget skill
Fetch checksum, length, and alias metadata, bounded raw sequence bytes, and sequence-collection facts from a GA4GH refget-conformant server
ga4gh-rnaget skill
"Browse GA4GH RNAget metadata and retrieve expression or continuous matrices by id from a configured RNAget 1.2.0 server
ga4gh-security skill
Mount the GA4GH Passport and GA4GH Crypt4GH plugins together and report which GA4GH security-domain standards this composition bundles
ga4gh-service-info skill
Fetch a GA4GH Service Info document (the standard `/service-info` endpoint) from a configured service and report its id, name, type, organization, and version
ga4gh-service-registry skill
List services registered with a configured GA4GH Service Registry, optionally filtered by GA4GH service type, or retrieve one registered service by id
ga4gh-tes skill
Submit, monitor, and cancel batch compute tasks on a configured GA4GH Task Execution Service (TES) server, and read the server's own description
ga4gh-trs skill
Read a GA4GH Tool Registry Service (TRS) registry: search registered bioinformatics tools (workflows and command-line tools), inspect one tool and its versions, and retrieve a version's descriptor, se
ga4gh-vrs skill
Normalize a genomic variation expression (HGVS, gnomAD VCF, or free-text) against a configured GA4GH Variation Representation Specification (VRS) normalization service and return the normalized VRS va
ga4gh-wes skill
Submit, monitor, inspect, and cancel workflow runs on a configured GA4GH Workflow Execution Service (WES) endpoint
GDM AlphaGenome Variant Analysis skill
Predicts a non-coding genomic variant's effect on gene expression, chromatin accessibility, histone marks, and transcription-factor binding via Google DeepMind's hosted AlphaGenome API.
K-Dense Clinical Reports skill
Safety-bounded draft structures for clinical case, trial, and aggregate research reports, with a hard human-review gate and per-claim provenance.
SciAgent-Skills ClinVar Database skill
Queries NCBI ClinVar via E-utilities for variant clinical significance, pathogenicity, disease associations, and VCF annotation.
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