Agent Skills catalog · page 34
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K-Dense-AI/scientific-agent-skills
gtars
Use Gtars for local genomic interval models and set algebra, overlaps and counts, consensus and coverage, tokenization, fragment processing, and refget/BEDbase planning across Python, Rust, and the CLI.
K-Dense-AI/scientific-agent-skills
infographics
Create professional infographics using Nano Banana Pro AI with smart iterative refinement. Uses Gemini 3.6 Flash for quality review. Integrates research-lookup and web search for accurate data. Supports 10 infographic types, 8 industry styles, and colorblind-safe palettes.
K-Dense-AI/scientific-agent-skills
opentrons-integration
Author, review, migrate, simulate, and troubleshoot official Opentrons Python Protocol API v2 protocols for Flex and OT-2 robots. Use for robot-specific liquid handling, deck and labware setup, pipettes, modules, runtime parameters, liquid classes, and Opentrons App analysis. Use pylabrobot instead when one workflow must support multiple robot vendors.
K-Dense-AI/scientific-agent-skills
paper-lookup
Search 11 academic literature APIs for papers, preprints, citations, and open-access full text, and return results with reproducible provenance. Covers PubMed, PMC (full text), Europe PMC (full-text and preprint search), bioRxiv, medRxiv, arXiv, OpenAlex, Crossref, Semantic Scholar, CORE, Unpaywall. Use when searching for papers, citations, DOI/PMID/arXiv lookups, abstracts, full text, open-access PDFs, preprints, citation graphs, author publications, or any scholarly literature query. Triggers
K-Dense-AI/scientific-agent-skills
uncertainty-and-units
Track physical units and propagate measurement uncertainty in scientific calculations using pint and uncertainties. Use for unit conversion and dimensional checking, GUM uncertainty budgets, Type A and Type B evaluation, coverage factors and expanded uncertainty, Monte Carlo propagation, significant-figure and plus-minus reporting, error propagation through curve fits, CODATA constants, auditing Python code for stripped units or broken uncertainty propagation, and order-of-magnitude plausibility
K-Dense-AI/scientific-agent-skills
vaex
Use this skill for processing and analyzing large tabular datasets (billions of rows) that exceed available RAM. Vaex excels at out-of-core DataFrame operations, lazy evaluation, fast aggregations, efficient visualization of big data, and machine learning on large datasets. Apply when users need to work with large CSV/HDF5/Arrow/Parquet files, perform fast statistics on massive datasets, create visualizations of big data, or build ML pipelines that do not fit in memory.
K-Dense-AI/scientific-agent-skills
anndata
Data structure for annotated matrices in single-cell analysis. Use when working with .h5ad files or integrating with the scverse ecosystem. This is the data format skill—for analysis workflows use scanpy; for probabilistic models use scvi-tools; for population-scale queries use cellxgene-census.
K-Dense-AI/scientific-agent-skills
astropy
Core Python library for astronomy and astrophysics workflows that need Astropy APIs, including units/quantities, coordinates, FITS I/O, tables, time systems, WCS, and cosmology. Use when implementing or debugging astronomical data analysis code with Astropy.
K-Dense-AI/scientific-agent-skills
etetoolkit
Analyze, manipulate, compare, annotate, and visualize phylogenetic or other hierarchical trees with ETE 4. Use for Newick/Nexus tree I/O, topology edits and pattern matching, Robinson-Foulds comparisons, gene-tree evolutionary events and reconciliation, NCBI/GTDB taxonomy, SmartView exploration, and publication rendering. Do not use it to infer trees from raw sequences; align sequences and infer a tree first.
K-Dense-AI/scientific-agent-skills
lab-hardware-cad
Design custom laboratory hardware as parametric build123d models and export fabrication-ready STEP, STL, and DXF files - microfluidic chips and molds, optomechanical mounts and breadboard adapters, cuvette and microplate holders, tube racks, animal-behavior rigs, and 3D-printed instrument fixtures. Use when a research task needs a physical part that must mate with standardized labware, an optical table, a cage system, or a printer, CNC, or laser process.
K-Dense-AI/scientific-agent-skills
literature-review
Conduct comprehensive, systematic literature reviews using multiple academic databases (PubMed, arXiv, bioRxiv, Semantic Scholar, etc.). This skill should be used when conducting systematic literature reviews, meta-analyses, research synthesis, or comprehensive literature searches across biomedical, scientific, and technical domains. Creates professionally formatted markdown documents and PDFs with verified citations in multiple citation styles (APA, Nature, Vancouver, etc.).
K-Dense-AI/scientific-agent-skills
market-research-reports
Build evidence-traceable market research reports and assumption-driven market sizing or forecast scenarios. Use for market definition, industry and customer evidence, competitive landscapes, TAM/SAM/SOM reconciliation, forecast sensitivity, and auditable report scaffolds.
K-Dense-AI/scientific-agent-skills
scientific-slides
Build slide decks and presentations for research talks. Use this for making PowerPoint slides, conference presentations, seminar talks, research presentations, thesis defense slides, or any scientific talk. Provides slide structure, design templates, timing guidance, and visual validation. Works with PowerPoint and LaTeX Beamer.
K-Dense-AI/scientific-agent-skills
scientific-writing
Draft, revise, and audit scientific manuscripts or reports with explicit evidence provenance, reporting-guideline coverage, authorship accountability, confidentiality controls, and local consistency checks. Use for manuscript sections, references, declarations, tables, figures, or submission preparation when scientific accuracy and traceability matter.
K-Dense-AI/scientific-agent-skills
scvelo
RNA velocity analysis with scVelo. Estimate cell state transitions from unspliced/spliced mRNA dynamics, infer trajectory directions, compute latent time, and identify driver genes in single-cell RNA-seq data. Complements Scanpy/scVI-tools for trajectory inference.
K-Dense-AI/scientific-agent-skills
torch-geometric
PyTorch Geometric (PyG) for graph neural networks — node/link/graph classification, message passing (GCN, GAT, GraphSAGE, GIN), heterogeneous graphs, neighbor sampling, and custom datasets. Use when working with torch_geometric, not for general NetworkX analytics or non-graph PyTorch models.
K-Dense-AI/scientific-agent-skills
torchdrug
Build and troubleshoot TorchDrug 0.2.1 workflows for molecular graphs, property prediction, self-supervised pretraining, molecule generation, retrosynthesis, protein representation learning, and knowledge graph reasoning. Use when code imports torchdrug or needs its datasets, models, tasks, or Engine.
K-Dense-AI/scientific-agent-skills
umap-learn
Use UMAP-learn for nonlinear dimensionality reduction, 2D/3D embeddings, clustering preprocessing, supervised or semi-supervised UMAP, DensMAP, AlignedUMAP, and Parametric UMAP workflows.
agentscope-ai/QwenPaw
cron
Use this skill only for scheduled or recurring tasks. Manage jobs with qwenpaw cron list/create/get/state/update/pause/resume/delete/run, and always pass --agent-id explicitly.
agentscope-ai/QwenPaw
multi_agent_collaboration
Use this skill when another agent's expertise or context is needed, or when the user explicitly asks to involve another agent. First list agents, then use qwenpaw agents chat for two-way communication with replies.
agentscope-ai/QwenPaw
channel_message
Use this skill to proactively send a one-way message to a user/session/channel, usually only when the user explicitly asks to send to a channel/session or when proactive notification is needed. First query sessions with qwenpaw chats list, then push with qwenpaw channels send.
agentscope-ai/QwenPaw
terraform-skill
Use when working with Terraform or OpenTofu - creating modules, writing tests (native test framework, Terratest), setting up CI/CD pipelines, reviewing configurations, choosing between testing approaches, debugging state issues, implementing security scanning (trivy, checkov), or making infrastructure-as-code architecture decisions
agentscope-ai/QwenPaw
chat_with_agent
Use this skill when you need to consult another agent, ask for help, or involve a specific agent the user asked for.
agentscope-ai/QwenPaw
make-skill
Use this skill when sedimenting a session into a reusable workspace skill. Triggers when the user wants to turn the current conversation, workflow, or troubleshooting path into a SKILL.md. Phrases like 'turn this into a skill', 'remember how I did X', 'save this workflow', 'make a skill from this', and any /make-skill <focus> invocation should fire this skill.