feat(landing): 'Stop tab-switching' hero + docking sample, drop stale New badges

feat(seo): JSON-LD structured data — Organization/WebSite graph, SoftwareApplication+HowTo homepage, BreadcrumbList across tools

feat(branding): Synteny rebrand — new identity, signal-coded palette, and pipeline icons

feat(design): bioluminescent green+violet palette and re-tuned landing hero

feat(landing): trust & craft pass — sample result preview with confidence bands, honest service/status copy, unified CTA verbs, grouped database taxonomy, 44px nav touch targets, calmer motion (no chevron loop, glow under nav)

feat(ui): apple-design conformance — springs for micro-interactions, reduced-motion/transparency/contrast support, typography tracking

feat(theme): dual light/dark mode with Apple light theme, toggle, and theme-aware viewers

feat(landing): add cursor glow to hero and hover/tap polish to analyze cards

Fix share links, persist wizard jobs, add AI interpretation fallback, animate landing

Refine design system: semantic color tokens, tiered motion, denser result cards, VinaLog toolbar

Restore DNA helix as full-window landing hero background, drop fake HUD readout

Redesign landing: asymmetric hero with instrument-window helix, bento features, route-style pipeline, restrained motion

refactor(icons): migrate lucide-react to @phosphor-icons/react, remove dep

chore: frontend design polish (accent palette, remove glow/gradient utils), ignore installed skill trees, add opencode skills config

feat(frontend): HUD glass design system + clay components

fix: remove opacity:0 flicker from all pages

full dark migration: CSS overrides for all legacy classes, framer-motion animations across every page/component, rebrand to Bio Nexus

redesign: BioFlow AI void-dark theme — new landing page, dashboard, Three.js DNA helix, Lenis smooth scroll

dark mode: add missing CSS overrides (gradients, forms, badges, hover, bg-opacity, teal variants) + ThemeToggle on landing, auth, callback, shared pages

named exports, any->unknown, theme toggle (light/dark), dark mode fixes, error extractor, deleted pipline/ typo dir

Deploy prep: Render config + Dockerfile, refactored backend auth flow, dashboard, landing page, error states, guest flow

Re-enable OAuth: restore auth pages, Providers wrapper, dashboard auth guard, landing page CTA

Core pipeline testability: progress callback, rate limiter 429, history table

Initial commit: Bio Nexus pipeline engine — BLAST + UniProt + AlphaFold + AI interpretation (Phase 1)