lab-tools
32
digital-life
数字人生.skills — 5 个以数字痕迹为证据的人文自我考古工具，用来照见真实的自己。 触发词：遗产清算、社死考古、AI替身、前世、墓志铭、数字人生、考古工具箱、digital life
wildbyteai
research
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lab-tools
32
spicesharp-circuit-design
Structured R&D problem-solving with test-driven verification for designing analog circuits using SpiceSharp and SpiceSharpParser that produces human-readable reports, netlist and tests and maintains a global backlog of active designs.
SpiceSharp
research
lab-tools
32
fuzz-findings
Manage differential-fuzzer findings: query fixed/unfixed status, list by category, verify findings against the current VM, mark findings as fixed/unfixed, and batch-update categories. Use when working on fuzz findings, checking what's fixed, or triaging new results.
bitwisecook
research
lab-tools
32
iikit-06-analyze
Validate cross-artifact consistency — checks that every spec requirement traces to tasks, plan tech stack matches task file paths, and constitution principles are satisfied across all artifacts. Use when running a consistency check, verifying requirements traceability, detecting conflicts between design docs, or auditing alignment before implementation begins.
intent-integrity-chain
research
scientific-computing
32
hmdb-database
Access Human Metabolome Database (220K+ metabolites). Search by name/ID/structure, retrieve chemical properties, biomarker data, NMR/MS spectra, pathways, for metabolomics and identification.
lifangda
research
scientific-computing
32
ethena-usde
"Synthetic dollar protocol with sUSDe staking yields, cooldown mechanics, and cross-chain balances."
jiayaoqijia
research
scientific-computing
32
dpgen-simplify
Prepare, explain, validate, and run DP-GEN simplify workflows for reducing repeated or redundant DeepMD datasets. Use when the user wants to generate or modify `param.json` and `machine.json`, run `dpgen simplify param.json machine.json`, organize repeated simplify experiments, or inspect simplify outputs.
jinzhezenggroup
research
scientific-computing
32
pymatgen-structure
Structure manipulation and crystal analysis workflows based on pymatgen. USE WHEN you need to read/write common atomistic formats (CIF, POSCAR, XYZ), build supercells, perform site substitution/doping, inspect symmetry (space group), or compute local structure descriptors for materials tasks.
jinzhezenggroup
research
scientific-computing
32
packmol-generate-mixture
A tool for generating initial packed molecular configurations (XYZ format) from single-molecule structures by calculating box dimensions, writing input scripts, and executing Packmol. USE WHEN you need to randomly pack a specific number of molecules into a simulation box (defined by target density or fixed lengths) to create starting geometries for molecular dynamics or related computational chemistry workflows.
jinzhezenggroup
research
scientific-computing
32
openbabel
A versatile CLI tool for converting molecular file formats, generating 3D atomic coordinates from SMILES, rendering 2D chemical structure images, and preparing or extracting structures for computational workflows. USE WHEN you need to convert between chemical file formats (e.g., xyz, pdb, mol, smi, gjf), generate 3D structures from SMILES using `--gen3d`, render molecule images (PNG/SVG), or extract geometries from simulation logs to build new inputs.
jinzhezenggroup
research
scientific-computing
32
dpdata-cli
A command-line utility for converting and manipulating over 50 atomic simulation data formats, including outputs from DFT and MD software (VASP, LAMMPS, Gaussian, QE, CP2K, ABACUS, etc.). USE WHEN you need to convert structural or trajectory files between different computational chemistry formats, or when parsing raw simulation outputs into structured training datasets (e.g., deepmd/raw, deepmd/npy, deepmd/hdf5) for DeePMD-kit.
jinzhezenggroup
research
scientific-computing
32
search-species
USE WHEN requesting core chemical structural data (SMILES, formula, mass, 2D images) via IUPAC, common, or multilingual names. You MUST actively retrieve the data using this skill; DO NOT hallucinate or generate structures yourself. DO NOT USE WHEN asking for physical properties (melting point, solubility), safety/toxicity data (MSDS), or synthesis pathways.
jinzhezenggroup
research
scientific-computing
32
rdkit-repr
A standardized CLI wrapper for RDKit molecular featurization workflows that handles physicochemical descriptor computation (outputs .csv) and molecular fingerprint extraction (outputs .npy or .csv), with built-in SMILES validation. USE WHEN you need to compute RDKit molecular descriptors or fingerprints from SMILES datasets (.csv/.smi), or when you want to list all available descriptor names and presets.
jinzhezenggroup
research
academic
31
mteb-retrieve
Guidance for text embedding retrieval tasks using sentence transformers or similar embedding models. This skill should be used when the task involves loading documents, encoding text with embedding models, computing similarity scores (cosine similarity), and retrieving/ranking documents based on semantic similarity to a query. Applies to MTEB benchmark tasks, document retrieval, semantic search, and text similarity ranking.
letta-ai
research
scientific-computing
31
bn-fit-modify
Guidance for Bayesian Network DAG structure recovery, parameter learning, and causal intervention tasks. This skill should be used when tasks involve recovering DAG structure from observational data, learning Bayesian Network parameters, performing causal interventions (do-calculus), or generating samples from modified networks. Applies to tasks mentioning Bayesian networks, DAG recovery, structure learning, causal inference, or interventional distributions.
letta-ai
research
bioinformatics
31
bn-fit-modify
Guide for Bayesian Network tasks involving structure learning, parameter fitting, intervention, and sampling. This skill should be used when working with pgmpy or similar libraries to recover DAG structures from data, fit conditional probability distributions, perform causal interventions (do-calculus), or sample from modified networks.
letta-ai
research
academic
31
yelp-search
Search Yelp for local businesses, get contact info, ratings, and hours. Use when finding services (cleaners, groomers, restaurants, etc.), looking up business phone numbers to text, or checking ratings before booking. Triggers on queries about finding businesses, restaurants, services, or "look up on Yelp".
letta-ai
research
astronomy-physics
31
path-tracing
Guidance for implementing path tracers and ray tracers to reconstruct or generate images. This skill applies when tasks involve writing C/C++ ray tracing code, reconstructing images from reference images, or building rendering systems with spheres, shadows, and procedural textures. Use for image reconstruction tasks requiring similarity matching.
letta-ai
research
bioinformatics
31
protein-assembly
Guidance for designing fusion protein gBlock sequences from multiple protein sources. This skill applies when tasks involve combining proteins from PDB databases, plasmid files, and fluorescent protein databases into a single optimized DNA sequence with specific linkers and codon optimization requirements.
letta-ai
research
bioinformatics
31
protein-assembly
Guidance for designing and assembling multi-component fusion protein sequences, particularly for FRET biosensors and tagged constructs. This skill applies when tasks involve identifying proteins by spectral properties (excitation/emission wavelengths), assembling fusion proteins from multiple domains, codon optimization with GC content constraints, working with PDB sequences and fluorescent protein databases, or generating gBlock sequences for gene synthesis.
letta-ai
research
bioinformatics
31
dna-assembly
Guidance for Golden Gate assembly primer design and DNA assembly tasks. This skill should be used when designing primers for Golden Gate cloning, Type IIS restriction enzyme assembly, or multi-fragment DNA assembly workflows. It covers overhang selection, primer structure, assembly simulation, and verification strategies.
letta-ai
research