1. Quick start

Choose a starting method based on what you want to do. Each example below opens real atlas content and, where relevant, a complete saved application state.

Find a concept

Search for electron. Every match is marked; the highest-ranked result opens in Details.

Search electron

Read one concept

Open Group with its canonical concept URL, then follow its recorded relations.

Open Group

See the large-scale structure

Open Mathematics in Domains layout with Algebra selected. The aggregate arrows summarize the visible directed relations.

Open domain structure

Inspect a multi-input construction

Open the diamond where a group and total order jointly form a totally ordered group.

Open construction diamond

Reproduce a filtered view

Open only Algebra, with Group selected. The compact share tokens encode the complete filter and display state.

Open saved Algebra state

2. Read the graph

The atlas is an editorial map of structural, mathematical, physical, chemical, historical, and evidential relationships. Position supports interpretation, but it is not a proof and horizontal distance is not a metric.

Concept node

One solid rounded node represents one concept. Its fill and lane use its primary domain.

Additional domains

Small colored markers show secondary memberships. The concept remains one node, not a duplicate.

Construction diamond

A diamond is an AND construction: every listed input and the compatibility condition are required.

Levels and lanes

In Layered layout, authored vertical levels generally move from less structure near the top toward specialization, added data or axioms, composition, approximation, physical realization, collective organization, or emergence below. Mathematics occupies the upper formal band. Physics and Chemistry share the lower scientific band while retaining their authored relative levels. Horizontal lanes group primary domains; their separation is organizational rather than quantitative.

Relations

An arrow has three parts: its direction, its relation type, and its specific annotation. Do not infer that every downward edge means “derived from,” or that experimental support is logical proof. Select an edge to read its exact meaning and sources.

Prerequisite context

When you select a subset of domains, the atlas can retain required prerequisite concepts from outside that subset. Those nodes are normally faded. They are context, not direct matches. Hide prerequisites removes this closure; domain and field suppression can restrict it more selectively.

Construction diamonds

When construction junctions are visible, incoming branches meet at a diamond and an outgoing branch reaches the result. When junctions are hidden, the atlas contracts the diamond into dashed direct branches. Labels beginning with jointly still mean every associated branch is required.

Complete relation key: 25 active meanings

Arrow direction and edge type are authored claims. The exact annotation on an edge states what changes in that particular relation.

Add data

Equip an existing carrier or structured object with additional chosen data, when such compatible data exists. Use a construction junction when several independently meaningful inputs must coexist on the same carrier or interact compatibly.

Impose axiom

Keep the existing data and select the subclass satisfying an additional law, existence condition, finiteness condition, or other property.

Induced / forgotten

Pass canonically from a stronger object to structure it determines, or forget part of the data while retaining a valid weaker structure. The carrier may change under a canonical induced construction.

Canonical construction

Apply a standard functorial or canonical construction whose output is not merely a reduct of the input and is not generally an equivalent presentation of the same object.

Quotient construction

Identify elements by a stated equivalence relation and equip the quotient with the induced structure. The edge detail must state the representatives and equivalence relation.

Canonical embedding

Map one structure injectively into another by the standard structure-preserving inclusion or representation. This records a canonical copy, not necessarily literal set containment.

Combine compatible structures

Feed several structures into a construction junction and impose compatibility between them.

Representation / equivalence

Reinterpret an object, pass to an equivalent presentation, or relate canonically corresponding structures; the carrier may change.

Theorem implication

Record a genuine theorem implication that is not part of the target definition; these edges may point toward a weaker structure.

Mathematical formulation

A mathematical concept supplies part of the formal language, state space, representation, or analytic machinery used by a scientific or mathematical-physics concept. The source is the mathematical predecessor; this does not claim that physical content follows from mathematics alone.

Framework specialization

A more specific theory, model, entity class, or regime is obtained by restricting or extending the scope of a broader framework.

Quantization

A classical system or field theory is used to construct a quantum theory through a stated quantization procedure. Quantization need not be unique and is not guaranteed to preserve every classical structure.

Theory component

The source supplies a substantive formal ingredient, dynamical sector, law, field content, or mechanism of the target theoretical framework.

Describes / governs

A theory, law, or interaction describes the behavior of the target within a stated regime. The edge detail must state important limits or qualifications.

Physical constitution / realization

The source is a material constituent, structural component, or underlying quantum field whose excitation realizes the target physical system or particle. The edge label and detail must distinguish composition from field excitation; neither implies a simple classical sum of parts.

Classification

The target is a member or subtype of the broader source class.

Physical interaction / binding

The source field, particle, charge, current, or interaction couples to, acts on, binds, forms, or stabilizes the target in the stated regime. The edge label and detail must identify the exact coupling, interaction, or binding claim and its qualifications.

Limit / controlled approximation

The target is recovered from the source either in a stated mathematical or asymptotic limit, or through a quantitatively controlled approximation with identified small parameters or omitted terms. The edge label and detail must state which case applies and its regime of validity.

Effective theory / model

The target retains the degrees of freedom and interactions relevant below a stated scale or within a stated regime, while higher-energy or unresolved degrees of freedom from the source are integrated out, coarse-grained, or encoded in effective couplings.

Model / approximation method

The target is a model, idealization, restricted ansatz, approximation scheme, phenomenological fit, or historical representation used for the source system or theory. It need not have a universal small error parameter and is not thereby a controlled limit or effective theory. The edge label and detail must identify the precise status.

Emergent / collective behavior

The target is a collective, organizational, or scale-dependent phenomenon of the source constituents and interactions; it is not a mere list or classical sum of constituents.

State / property description

The target represents a state, property, observable, or state-dependent description associated with the source system or theory.

Transformation / process

A physical process transforms the source into, or produces, the target under the conditions stated in the edge detail.

Historically motivated

The source experiment, observation, anomaly, or problem materially motivated the development, revision, or acceptance of the target concept. Historical influence is not logical derivation; the edge detail states the documented role and avoids retrospective origin myths.

Experimentally tested / supported by

The source theory, law, entity, prediction, or structural claim is directly tested, supported, constrained, or established by the target experiment or observation. Experimental support is not final logical proof; the edge detail states exactly what was measured.

5. Filters

Filters determine which concepts and relations are admitted. Display settings change how that admitted graph is presented. The URL records both groups independently.

Fields and domains

Checkbox
Adds or removes that field or domain from the direct selection.
Linked name
Isolates that field or domain. Selecting its linked name again while it is the sole selection chooses every other field or domain instead.
all / none
Selects every field and domain, or clears them all.
Counts
Field counts include all concepts belonging to the field. Domain counts include primary and secondary memberships.

Suppression states

The visibility button beside each domain cycles through three states. This is separate from whether its checkbox is selected.

Allowed

Ordinary direct matching and prerequisite context.

Excluded

A node whose primary domain is excluded is not admitted merely as prerequisite context. An enabled, non-excluded secondary membership may still select it directly.

Prohibited

A node with that primary domain is always hidden, including through secondary memberships and prerequisite closure.

Field suppression is two-state: allowed or excluded. Domain suppression cycles gray → yellow → red → gray.

Relation types

Relation checkboxes control both the edges drawn and the relation types allowed to participate in prerequisite closure. Selecting a relation-type name isolates that type; selecting the same isolated name again chooses every other active type.

Display controls

Edge labels
Shows or hides the authored annotations attached to relations.
Edge interaction only when zoomed in
Prevents overview-scale edges from capturing pointer input.
Construction junctions
Shows diamonds, or contracts them into dashed direct AND-branches.
Hide prerequisites
Disables transitive prerequisite context entirely.
Show only primary domain matches
Ignores secondary domain memberships when deciding direct matches.
Hide isolates without filtered relations
Removes nodes left with no incident relation under the current visibility and relation filters.
Cross-field links: Contextual
Shows cross-field relations for overview and the selected neighborhood, rather than all the time.
Cross-field links: All / Hidden
Shows every admitted cross-field relation, or none of them.

Open Chemistry with primary-only matching →

6. Layouts

Layered

Uses authored vertical levels and primary-domain lanes. It is the best layout for reading structural progression and cross-field placement.

Compact

Uses only currently visible nodes. Empty authored levels consume no rows, and deterministic ordering makes the same visible set reproduce the same arrangement.

Domains

Preserves the Layered concept positions as a dim substrate, then summarizes visible primary domains as centroid nodes connected by weighted directed aggregate relations.

Fields

Uses the same semantic-overview method at field scale. It is useful for seeing the overall flow among Mathematics, Physics, and Chemistry.

In Domains and Fields layouts, selecting a centroid hides unrelated aggregate arrows until the selection is cleared. Selecting a centroid or aggregate relation opens counts and supporting relations in Details. Arrow thickness records how many visible authored relations contribute to that aggregate direction.

Open the field structure with Physics selected →

Compact suggestion: the Compact toolbar button may briefly pulse amber when the current Layered graph is unusually wide and sparse. It is a suggestion, not an automatic layout change.

7. Details and sources

Details is the atlas’s reading surface. Select a concept, construction junction, edge, domain, field, or aggregate relation to inspect the corresponding record.

Concepts

Summary, field and domain memberships, type and scale metadata, carriers, data, axioms or constraints, induced structures, editorial sections, notes, relations, Stories, Views, and sources.

Relations

Source and target, edge type, the exact “what changes” annotation, interpretation of the type, and citations. In relation groups, the destination appears first and the annotation follows as via [annotation].

Construction junctions

All required inputs, the compatibility condition, and the resulting concept. Hidden-junction synthetic edges repeat the AND warning.

Structure overlays

Visible concept counts, aggregate in/out counts, and the authored relations contributing to a selected domain, field, or aggregate arrow.

Header actions

  • Link copies a permalink containing the current selection, filter state, display state, and active comparison.
  • Edit opens the corresponding source record on GitHub. This is for readers who want to propose corrections or additions.
  • Compare appears when Experimental features are enabled and pins the selected concept into the comparison workspace.

Taxonomy badges and relation links are navigable. A relation link can reveal a concept currently hidden by ordinary filters, but it does not silently override a prohibited-domain setting.

8. Stories and Views

View

A curated graph configuration: fields, domains, relation types, display options, layout, and optional core nodes.

Story

A View with an ordered concept sequence. Numbered badges mark its nodes, and Previous/Next controls move through the sequence while leaving the rest of the graph available for exploration.

  1. Open Stories & Views from the toolbar or the static directory.
  2. Select a card. A Story begins at its first step; a View opens its curated configuration.
  3. Expand the banner for the narrative and sequence controls.
  4. Change filters or display options as needed. The changes remain attached as URL overrides while required Story or core nodes stay visible.
  5. Use the explicit exit action at the top of Filters. For a core-node Story or View, Use primary domains converts the core nodes into their ordinary domain scope.

Open “From sets to spaces” from the beginning →

9. Compare and connect (experimental)

Enable Experimental features in Preferences to reveal Compare in the toolbar and concept Details.

Overview

Contrasts two concepts’ recorded definitions, taxonomy, source overlap, direct enabled relations, relation-type profile, and shared adjacent concepts.

Connections

Finds up to three short paths through the currently visible graph. Choose either traversal direction while preserving arrow meaning, or follow authored arrows from A to B only.

Connections never silently re-enable hidden concepts or relation types. A path is limited to twelve relations. You can choose an alternative path, fit it, select its nodes or edges, and copy its node sequence in Story-authoring format.

Prepare a real Group–Ring comparison →

10. Preferences

Preferences are saved only in the current browser. They are intentionally excluded from shared URLs.

Theme
Dark and Light select a fixed appearance. System follows the operating system and updates when its color scheme changes. The interactive atlas and generated HTML pages use the same saved choice. Authored domain colors retain their meaning while text, relation colors, label fills, outlines, and backgrounds adjust for contrast. The Preferences default is System; before a choice has been saved, standalone static pages follow the system scheme.
High resolution
Uses the browser’s full device pixel ratio. Turn it off to cap rendering resolution on dense or high-DPI displays.
Fade transitions
Animates opacity and style changes over a short interval.
Animate graph
Animates node motion and fitting during layout changes. Off by default.
Auto-fit
Refits after filter or layout changes. Turn it off to preserve your current viewport.
Mark additional domains
Shows small markers for secondary domain memberships.
Overlay domains
Shows domain-name overlays at useful zoom ranges in Layered and Fields modes.
Hide edges while moving
Temporarily suppresses edges during pan and zoom to improve interaction performance.
Dim prerequisites
Fades prerequisite-only context. Turning it off leaves those nodes at ordinary opacity.
Highlight prerequisite path
Highlights the selected concept’s transitive prerequisite nodes and edges.
Experimental features
Reveals Compare and gates Motion blur and Allow node dragging.
Motion blur
Uses the renderer’s motion-blur mode. It has no effect unless Experimental features is also enabled.
Allow node dragging
Lets you move individual nodes. It has no effect unless Experimental features is also enabled; ordinary dragging pans the graph.

Reset restores the default preference set. It does not change filters or the shareable display state.

11. Permalinks and export

What a permalink preserves

The app separates shareable state into two compact, independently versioned tokens:

Canonical concept, field, domain, and Story/View paths remain human-readable. The compact tokens reproduce the live graph state. Browser-only Preferences are excluded.

The guide’s saved-state examples are generated at build time with the same encoders used by the application. For example, this Algebra permalink contains real current identifiers and valid compact tokens.

SVG export

The download button exports the currently visible graph as a standalone SVG. It preserves the active resolved Light or Dark theme, layout, labels, annotations, domain markers, selection and emphasis, Story sequence badges, and metadata. Domains and Fields overlays export as shown. The build-published all-in export uses a deterministic Light theme and is always available at /static/atlas.svg.

12. Static pages and data

The atlas is interactive, but its principal routes also publish static HTML for search engines, citation, accessibility, and no-script browsing.

/directory/
Complete semantic directory plus the exact all-in SVG.
/math/, /physics/, /chemistry/
Field landing pages with interactive scope and static SVG previews.
/math/algebra/ and other domains
Domain landing pages scoped to primary-domain concepts.
/concepts/<id>/
Canonical concept pages. Example: Molecule.
/views/
Static Story and View directory, with one crawlable page per entry.
/data/
Dataset landing page with stable JSON URLs, checksums, and AI-use guidance.
/static/atlas.svg
Standalone vector map with links back to concept routes.
Data section in Filters
Published graph, schema, Story/View data, share codec, provenance, content license, Directory, and standalone SVG.

The graph is editorially selective and source-backed. Use the citations attached to each record for technical verification rather than treating the map’s geometry as evidence by itself.

13. Keyboard and mobile

Keyboard

/ focuses search · F fits the graph · Escape clears search and closes open mobile panels. Search suggestions and Compare tabs support arrow-key navigation.

Mobile and touch

Pinch to zoom and drag to pan. Filters enter from the left; Details rises from the bottom. The active Story or View context moves into the Details surface when necessary.

All toolbar buttons and filter controls have accessible names. The static Directory and this guide remain usable without JavaScript.