Agent skill · nvidia
rfdiffusion-nim
Run RFDiffusion protein backbone design via NVIDIA NIM. Use for de novo protein backbones, motif scaffolding, binder design, hotspot residues, contigs syntax, diffusion steps, hosted NVIDIA API calls, local Docker deployment, and PDB backbone outputs for ProteinMPNN sequence design.
What it needs
About 3k tokens when loaded.
What this skill does
RFDiffusion NIM Design protein backbone PDBs for de novo proteins, motif scaffolds, and binders. Use this guide for first-pass hosted/local usage; load supplemental files only when needed: references/api.md: exact endpoints, schemas, Docker flags, response fields. references/science.md: design modes, strengths, limits, and handoffs. references/parameters.md: contigs, hotspots, steps, and seeds. references/validation.md: PDB, contig, and artifact sanity checks. references/examples.md: compact hosted/local request patterns. Choose Mode Ask only when context is unclear: Hosted NVIDIA API or local Docker NIM? Hosted: https://health.api.nvidia.com/v1/biology/ipd/rfdiffusion/generate Local: http://localhost:8000/biology/ipd/rfdiffusion/generate Local inference paths do not include /v1/. Hosted requests use Authorization: Bearer $NGCAPIKEY. Supported local Docker startup uses NGCAPIKEY (or NVIDIAAPIKEY via the preflight) for registry login, entitlement checks, and first-run model downloads; pass it into the container with -e NGCAPIKEY. Local inference requests use no auth header after readiness. Warm-cache key-free startup varies by image/version and should not be assumed. Local Docker For local setup answers, copy the preflight below exactly before docker login, docker run, readiness, and the no-auth local request. Do not replace it with a simple : "${NGCAPIKEY:?Set NGCAPIKEY}" check, do not invent a cache default, and do not drop the NVIDIAAPIKEY fallback. Default setup is single GPU device=0. Readiness: Contigs DSL contigs defines what to keep and what to generate. For the full pattern syntax (fixed length, ranges, kept chain segments, chain breaks), see references/api.md under Contigs Language Reference. Design modes: De novo: contigs="80-120"; live hosted validation requires a non-empty inputpdb or inputpdbasset, so inline requests should include the dummy PDB below. Motif scaffolding: read target.pdb, pass inputpdb, use a contig like "A25-35/0 50-80". …
How to use it
Reference it in AdaL, Claude Code, Cursor or any coding agent — nothing to install:
@skills nvidia/bionemo-rfdiffusion-nim