nvidia-bione
16 skills with substantive source documentation and an official publisher or observed installation demand. Read each skill’s original documentation through its card.
nvidia-bionemomsa-search-nim
Generate multiple sequence alignments (MSAs) for protein sequences using the ColabFold MSA-Search NIM. Use for homolog search, UniRef30/ColabFold env searches, A3M or FASTA alignments, paired MSA search for complexes, PDB70 structural templates, hosted NVIDIA API calls, or local Docker deployment. For local deployment, download the databases in parallel with aria2c and launch via NIMMODELNAME (the recommended default fast path, ~14 min vs over 80 min for the built-in downloader); a plain docker
- instalaciones
- 2
- GitHub Stars
- 488
- Actualizado
- 21 oct
nvidia-bionemomsa-structure-prediction-pipeline
NOTE: your protein sequence and the retrieved MSA alignment are transmitted to external NVIDIA-hosted APIs (health.api.nvidia.com) on every call. Use local NIM containers for confidential or proprietary sequences. Run a complete protein structure prediction pipeline using NVIDIA BioNeMo NIMs: search for MSA alignments with MSA-Search (ColabFold), then predict the structure with OpenFold3 using the retrieved alignments. Use this skill whenever the user wants to predict a protein structure with ma
- instalaciones
- 2
- GitHub Stars
- 488
- Actualizado
- 21 oct
nvidia-bionemoopenfold3-nim
Use this skill for OpenFold3, NVIDIA's BioNeMo NIM microservice for biomolecular structure prediction. Invoke whenever the user mentions OpenFold3 or needs protein, protein-ligand, protein-DNA/RNA, or multi-chain complex prediction with the hosted NVIDIA API or local Docker NIM. Covers endpoint choice, auth, request payloads, output artifacts, confidence scores, and local container setup.
- instalaciones
- 2
- GitHub Stars
- 488
- Actualizado
- 21 oct
nvidia-bionemoprotein-binder-design
Orchestrate an end-to-end de novo protein binder design campaign against a protein target by composing BioNeMo NIM skills. Use for binder design, minibinder design, de novo binders, RFdiffusion + ProteinMPNN + Boltz2/OpenFold3 pipelines, epitope/hotspot-targeted design, in-silico binder validation, and ranking designs by interface confidence.
- instalaciones
- 2
- GitHub Stars
- 488
- Actualizado
- 21 oct
nvidia-bionemoproteinmpnn-nim
Run ProteinMPNN inverse folding via NVIDIA NIM to design protein sequences for a target backbone. Sends user-provided PDB files and design parameters to NVIDIA's hosted API, authenticated with an environment API key, or to a user-selected local NIM. Use for sequence design, backbone redesign, fixed chains and residues, omitAAs, sampling temperature, soluble model, local Docker, and multi-FASTA output.
- instalaciones
- 2
- GitHub Stars
- 488
- Actualizado
- 21 oct
nvidia-bionemorfd4-proteina-annotated-cif
Use when creating, inspecting, editing, or validating RFD4-Proteina annotated CIF inputs and conditioning with AtomWorks.
- instalaciones
- 2
- GitHub Stars
- 488
- Actualizado
- 21 oct
nvidia-bionemorfd4-proteina-autoresearch
Use when iterating RFD4-Proteina design waves with explicit rewards, parameter sweeps, budgets, and promotion decisions.
- instalaciones
- 2
- GitHub Stars
- 488
- Actualizado
- 21 oct
nvidia-bionemorfd4-proteina-campaign
Use when running RFD4-Proteina campaigns with provenance linking inputs, designs, oracle results, metrics, and passer criteria.
- instalaciones
- 2
- GitHub Stars
- 488
- Actualizado
- 21 oct
nvidia-bionemorfd4-proteina-commitment-curves
Use for RFD4-Proteina commitment timing, partial-diffusion sweeps, parent-child correlations, and metric distributions.
- instalaciones
- 2
- GitHub Stars
- 488
- Actualizado
- 21 oct
nvidia-bionemorfd4-proteina-evaluate
Use when scoring existing RFD4-Proteina designs, aggregating metrics, adding custom metrics, or clustering diversity.
- instalaciones
- 2
- GitHub Stars
- 488
- Actualizado
- 21 oct
nvidia-bionemorfd4-proteina-generate
Use when generating RFD4-Proteina designs from annotated inputs with task, sampling, batch, and inline-metric choices.
- instalaciones
- 2
- GitHub Stars
- 488
- Actualizado
- 21 oct
nvidia-bionemorfd4-proteina-nim
Run RFD4-Proteina NIM for joint protein structure and sequence design, conditioned generation, and reward-guided search using the NVIDIA hosted API or a self-hosted NIM. Not for the older RFdiffusion contigs API.
- instalaciones
- 2
- GitHub Stars
- 488
- Actualizado
- 21 oct
nvidia-bionemorfd4-proteina-package
Use when packaging selected RFD4-Proteina designs, aligned refolds, measured metrics, and filters into a shareable TAR.
- instalaciones
- 2
- GitHub Stars
- 488
- Actualizado
- 21 oct
nvidia-bionemorfd4-proteina-search
Use when running RFD4-Proteina reward-guided beam search with chosen checkpoints, branching, metrics, and compute limits.
- instalaciones
- 2
- GitHub Stars
- 488
- Actualizado
- 21 oct
nvidia-bionemorfd4-proteina-setup
Use when installing or troubleshooting the RFD4-Proteina runtime, checkpoints, data paths, or GPU preflight.
- instalaciones
- 2
- GitHub Stars
- 488
- Actualizado
- 21 oct
nvidia-bionemorfdiffusion-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.
- instalaciones
- 2
- GitHub Stars
- 488
- Actualizado
- 21 oct