three.js scene graph objects: Object3D transforms and hierarchy, Group, Mesh, InstancedMesh, SkinnedMesh, BatchedMesh, LOD, Line/LineLoop/LineSegments, Points, Sprite, Bone, Skeleton, ClippingGroup; interaction via Raycaster, Layers masks, and EventDispatcher patterns. Use when building scene hierarchies, picking objects with Raycaster, or configuring instanced/skinned meshes; for pure vector math use threejs-math; for skeletal clips use threejs-animation.

three.js Scene graph root object, linear Fog and exponential FogExp2, Scene.background for solid colors or textures, and high-level environment background concepts that tie to PMREM and loaders in other skills. Use when configuring world container, atmospheric fog, or background; for HDR env map file loading use threejs-loaders; for GPU texture settings after load use threejs-textures; for tone mapping use threejs-renderers.

> **Purpose:** Single-screen overview of your current state. What am I working on? What happened recently? What should I do next?

'Show current work, recent validation, flywheel health, and next action.'

Macrograph is a visual programming platform with node-based graph interfaces. Supports both desktop (single-project) and server (multi-project) environments with real-time event processing and type-sa

Build modern Shiny dashboards and applications using bslib (Bootstrap 5). Use when creating new Shiny apps, modernizing legacy apps (fluidPage, fluidRow/column, tabsetPanel, wellPanel, shinythemes), or working with bslib page layouts, grid systems, cards, value boxes, navigation, sidebars, filling layouts, theming, accordions, tooltips, popovers, toasts, or bslib inputs. Assumes familiarity with basic Shiny.

Official GSAP skill for timelines — gsap.timeline(), position parameter, nesting, playback. Use when sequencing animations, choreographing keyframes, or when the user asks about animation sequencing, timelines, or animation order (in GSAP or when recommending a library that supports timelines).

After fixing a problem, capture the solution as searchable

NGS analysis toolkit. Used for BAM to bigWig conversion, quality control (correlation, PCA, fingerprint plots), heatmaps/feature plots (TSS, peaks), suitable for ChIP-seq, RNA-seq, ATAC-seq visualization.

Use facs gating viz style for data analysis workflows that need structured execution, explicit assumptions, and clear output boundaries.

Use gene structure mapper for data analysis workflows that need structured execution, explicit assumptions, and clear output boundaries.

Use idc-index to query and download public cancer imaging data from NCI Imaging Data Commons. Used to access large-scale radiology (CT, MR, PET) and pathology datasets for AI training or research. No authentication required. Supports metadata querying, in-browser visualization, and license checking.

Use grant gantt chart gen for evidence insight workflows that need structured execution, explicit assumptions, and clear output boundaries.

Automatically finds and ranks PubMed references for each sentence in scientific text; use when you need titles, DOIs, and brief recommendation reasons from the PubMed E-utilities API.

Access the Semantic Scholar Graph API to search papers and retrieve paper/author/citation data when you need literature discovery or citation graph exploration.

Interactive visualization library for Python. Use it when you need hover tooltips, zoom/pan, selection, animations, or charts embeddable in web pages (e.g., dashboards, exploratory analysis, presentations).

Automates publication-quality scientific diagrams (e.g., flowcharts, architectures, pathways) when you need journal/poster-ready visuals from a natural-language description.

Converts research text into a Mermaid technical roadmap flowchart. Use when the user provides research proposals, experiment designs, or scientific text and asks for a roadmap or flowchart.

Fix garbled text in PDF/SVG vector graphics caused by font encoding issues, making files editable in AI tools. Supports batch processing and JSON export for manual correction.

R-based econometric analysis for academic research. Use when writing R code for panel data, difference-in-differences, instrumental variables, spatial econometrics, or regression analysis. Covers data.table, fixest, sf, modelsummary, and publication-ready outputs.

Validate bibliography entries against citations in all manuscript files. Find missing entries and unused references.

Cross-reference all citations in source files against bibliography entries.

>-

>-

>-

>-

>-

'Unwraps hard-wrapped markdown files so that each sentence ends with a newline instead of mid-sentence line breaks. Joins continuation lines within a paragraph into single lines, then re-breaks at sentence boundaries (period, question mark, exclamation point). Preserves blank lines, headings, fenced code blocks, block quotes, and list items. Use when asked to unwrap text, fix line breaks, reflow sentences, or clean up hard-wrapped markdown or .qmd files.'

'Redistricting analysis in R using the redistverse ecosystem. Use whenever the user is working with redist, redistmetrics, ggredist, geomander, adj, alarmdata, PL94171, censable, easycensus, tinytiger, baf, rict, or redistio. Covers the complete pipeline: Census and spatial data loading, adjacency graph construction, SMC/MCMC simulation, constraints (population balance, county splits, VRA compliance), convergence diagnostics, plan metrics (compactness, partisan fairness, splits), visualization, summary tables, and interactive plan drawing. Invoke whenever the user mentions redistricting, gerrymandering, district plans, simulation ensembles, or any redistverse package by name.'

diverga

Cross-reference all citations in manuscript and book files against bibliography entries.

Guide to Algorithm Visualizer for interactive algorithm exploration

Guide to D3.js for building custom interactive data visualizations

Guide to Apache ECharts for interactive research data dashboards

Create maps, choropleths, and spatial data visualizations for research

Interactive data visualization with Plotly, ECharts, and D3

Guide to Metabase for open-source research data analytics and dashboards

Visualize networks, graphs, citation maps, and relational data

Guide to Plotly.py for interactive scientific visualizations in Python

Publication-quality data visualization with matplotlib, seaborn, and plotly

Guide to Redash for SQL-driven research data dashboards and sharing

Stata workflows for publication-ready sociology and social science research

Conduct systematic meta-analyses with effect size pooling and heterogeneity

All-in-one Python library for NLP, agents, and knowledge graphs

Query computational catalysis reaction data via Catalysis Hub GraphQL

Automate molecular simulations with the ChemGraph agentic framework

Citizen science platform API for biodiversity observations

Access 4M+ economics working papers and articles via RePEc API

Climate data analysis, modeling workflows, and carbon neutrality research met...

Access earth and environmental science datasets via PANGAEA API