The AGENTS.md documentation was outdated (v1.0) and missing coverage of major v1.1.0 features including DSL v2, dynamics simulations, uncertainty quantification, temporal networks, and null models.

Changes

New Feature Documentation

• DSL v2 modern builder API (Q, UQ, L, C, N, P) with 9 examples covering queries, uncertainty, layer algebra, grouping, comparison, and pattern matching
• Dynamics simulations: SIS, SIR, SEIR, RandomWalk, and custom process definitions (4 examples)
• Uncertainty quantification: StatSeries, resampling strategies, context managers (4 examples)
• Temporal networks: time-stamped edges, snapshots, sliding windows, temporal queries (5 examples)
• Null models: configuration model, statistical testing integration (2 examples)

Organization Improvements

• 28-section table of contents with anchor links
• API-specific patterns section (multi_layer_network API, DSL architecture, error handling)
• 10 common pitfalls with solutions (NetworkX limitations, builder chaining, uncertainty scope, temporal attributes, etc.)
• Security guidelines, testing strategy, performance considerations, contributing guidelines

Updated Content

• Version bumped to 1.1.0
• File structure updated to reflect current repository layout (dynamics/, uncertainty/, temporal_utils.py, nullmodels/)
• Additional features list expanded (dynamics, uncertainty, temporal, null models)

DSL v2 Example:

from py3plex.dsl import Q, L, UQ

# Query with uncertainty quantification and layer grouping
result = (
    Q.nodes()
     .from_layers(L["social"] + L["work"])
     .where(degree__gt=3)
     .uq(method="perturbation", n_samples=100, ci=0.95)
     .per_layer()
        .compute("betweenness_centrality")
        .top_k(20, "betweenness_centrality__mean")
     .end_grouping()
     .coverage(mode="at_least", k=2)
     .execute(network)
)

All code examples validated against current API.

Statistics: +1,200 lines (78% increase), 10 new sections, 25+ examples

• Fixes agents #973

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