Open Source Research Software
Forks are preserved here for provenance and discovery, while the main inventory stays focused on primary repositories.
Curated software catalogOwned projects and Active Inference Institute contributions with publication links.
Publication catalogSearch works across Active Inference, entomology, cognitive security, art, and biology.
Per-work landing pagesCanonical pages for bibliography entries, citations, abstracts, and related works.
Active Inference softwareGNN, CEREBRUM, FEP formalization, belief sharing, and educational infrastructure.
Computational methodsReproducible research templates, MDKV, discovery engines, and developer tooling.
Data catalogJSON exports for works, software, people, organizations, claims, and repository inventory.
Primary repository inventoryReturn to non-fork docxology and Active Inference Institute repositories.
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106Fork repos
104docxology
2AII
1Curated in software catalog
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96Archived
104Updated in 90 days
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Filter forked repositories by owner, curation status, language, recency, and text across names, topics, and descriptions.
| Repository | Language | Stars | Forks | Updated | Flags |
|---|---|---|---|---|---|
| ActiveInferenceInstitute/antsMDP-based active-inference simulation of ant-colony foraging in a T-maze: code for the "Active Inferants" paper (Friedman, Tschantz, Ramstead, Friston & Constant, 2021, Frontiers in Behavioral Neuroscience). | Python | 0 | 0 | 2026-11-05 | fork, recent |
| ActiveInferenceInstitute/pymdpA Python implementation of active inference for Markov Decision Processes | Python | 2 | 0 | 2026-11-04 | fork, recent |
| docxology/active-inference-sim-labLightweight toolkit for building active inference agents based on the Free Energy Principle. Includes C++ core for performance, Python bindings for ease of use, and integration with popular RL environments. Achieves human-level Atari performance with 10x less data than PPO. | Python | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/Active_Inference_for_FunTiny, transparent experiments in Active Inference using pymdp | Python | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/ActiveACOAugmenting Ant Colony Optimization with Active Inference | Python | 0 | 0 | 2026-11-07 | fork, recent |
| docxology/ActiveInference.jlA Julia Package for Active Inference | — | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/ad4mAgent-centric social network and interoperability dApp framework | JavaScript | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/AgentLaboratoryAgent Laboratory is an end-to-end autonomous research workflow meant to assist you as the human researcher toward implementing your research ideas | Python | 1 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/AI-ConductorBlindSpotComputational artifacts for The Conductor Blind Spot of the Quadratic Curvature Class on Ring-Structured Categorical Heads, exact-arithmetic certificate verification | TeX | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/aif_iwai2025_thoughtseedsTowards a fuller Act Inf implementation of Thoughtseeds Framework. Initial ideas only! | Python | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/amalgkitRNA-seq data amalgamation for a large-scale evolutionary transcriptomics | Python | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/ant_social_complexity | Shell | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/ants | Python | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/aqua-js-cliJS Client for external verifier | JavaScript | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/ATLASATLAS | Python | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/axiomImplementation and evaluation of the AXIOM architecture from the preprint "AXIOM: Learning to Play Games in Minutes with Expanding Object Centric Models" | Python | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/BayesBase.jlBayesBase is a package that serves as an umbrella, defining, exporting, and re-exporting methods essential for Bayesian statistics | — | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/bendBend 2: a fast language that blocks AI mistakes via proof. Install: curl -fsSL https://bend-lang.com/install.sh | sh | TypeScript | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/CatColabA collaborative environment for formal, interoperable, conceptual modeling | Rust | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/cogamesCoGames is a collection of multi-agent cooperative and competitive environments designed for reinforcement learning research. | Python | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/Cortex.jlA next generation message passing engine for Bayesian inference - successor of ReactiveMP.jl | — | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/covid19-forecast-hubA repository run by the Centers for Disease Control and Prevention (CDC) to collect forecasts of incident respiratory COVID-19 hospital admissions and emergency department visits. | — | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/delphi-epidataAn open API for epidemiological data. | — | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/dickens-arxiv24Experiments for Experiments for "A Mathematical Framework, a Taxonomy of Modeling Paradigms, and a Suite of Learning Techniques for Neural-Symbolic Systems". | Python | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/EFEasVFE | Julia | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/egs-trans-jspace-convergenceEGS-TRANS-2026-0710: King Bee J-Space structural validation with falsifiable public-data experiments | JavaScript | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/elizaAutonomous agents for everyone | TypeScript | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/enactive_inference_modelThree‑level hierarchical enactive inference model of mental action (focused‑attention meditation with expert–novice profiles) with reproducible simulations and figures. | Python | 1 | 0 | 2026-11-04 | curated, fork, archived, recent |
| docxology/exploration-toolingtools for evaluating and exploring forecasters | — | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/ExponentialFamily.jlExponentialFamily.jl is a Julia package that extends the functionality of Distributions.jl by providing a collection of exponential family distributions and customized implementations. | — | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/ExponentialFamilyProjection.jlA library to project an arbitrary function to an exponential family member distribution with the manifold optimization | — | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/fact-graphFact Graph | Scala | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/farmOSfarmOS: A web-based farm record keeping application. | PHP | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/FEP_RL_VAEA variational autoencoder using reinforcement learning and the free energy principle to show the power of my general_FEP_RL package. | Python | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/flash-cliffordTriton implementation of Clifford algebra neural networks. | Python | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/FluSight-forecast-hub | — | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/flybodyMuJoCo fruit fly body model and locomotion RL tasks | Python | 1 | 1 | 2026-11-04 | fork, archived, recent |
| docxology/foamA personal knowledge management and sharing system for VSCode | Python | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/FPFFirst Principle Framework | Python | 3 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/GEO-INFER-1 | — | 0 | 0 | 2026-09-22 | fork, recent |
| docxology/gfacsOfficial repository for GFACS | Python | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/GitNexusGitNexus: The Zero-Server Code Intelligence Engine - GitNexus is a client-side knowledge graph creator that runs entirely in your browser. Drop in a GitHub repo or ZIP file, and get an interactive knowledge graph wit a built in Graph RAG Agent. Perfect for code exploration | TypeScript | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/gnoGno: An interpreted, stack-based Go virtual machine to build succinct and composable apps + gno.land: a blockchain for timeless code and fair open-source. | Go | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/graphcoderArchitectural flow & mutation platform — bidirectional code ↔ graph | — | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/GraphPPL.jlDSL for probabilistic models specification and probabilistic programming. | — | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/groma.mdgroma.md - Your architecture as OKF Markdown in Git, and one C4 map you can walk. Scanned from source, curated by you and your agents. | — | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/GuildNetSovereign Compute, Automation and Agents for All | Go | 0 | 0 | 2025-10-17 | fork |
| docxology/herdrthe runtime your coding agents live on | — | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/hermes-agent-self-evolutionEvolutionary self-improvement for Hermes Agent — optimize skills, prompts, and code using DSPy + GEPA | Python | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/hongosAutonomous AI Video Generation Tool | Python | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/HSMM_covariatesCode to estimate an Hidden semi-Markov model where the dwell-time distribution may depend on time-varying covariates | R | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/InsightSpike-AIBrain-Inspired Multi-Agent Architecture for “Spike of Insight” (ΔEPC × ΔIG) | Python | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/IntroductionToAlgebraicEvaluationA collection of essays and code on algebraic methods to evaluate noisy judges on unlabeled test data. | Jupyter Notebook | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/Journal-UtilitiesUtilities and Documentation for creating contents for the Active Inference Journal | — | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/kK Framework Tools 7.0 | — | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/keepassxcKeePassXC is a cross-platform community-driven port of the Windows application “KeePass Password Safe”. | — | 0 | 0 | 2026-11-04 | fork, recent |
| docxology/ki_usOptimizing the United States of America | Python | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/kmyth | — | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/koi-processor-nodePersonal KOI-net node: FastAPI service, Postgres migrations and document ingest/extraction tools for a knowledge graph over your own sources. Apache-2.0. | — | 0 | 0 | 2026-11-05 | fork, recent |
| docxology/leanchessAn open-source place to play chess. One game, defined as a fold of its log. | Lean | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/LeanDB | Lean | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/MatrixCorrectionTools.jlThis package provides functionality to correct specific properties of a matrix using predefined strategies. | — | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/MemOSMemOS (Preview) | Intelligence Begins with Memory | Python | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/metta-1A reinforcement learning codebase focusing on the emergence of cooperation and alignment in multi-agent AI systems. | Python | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/mission-controlThe open-source dashboard for AI agent orchestration. Manage agent fleets, track tasks, monitor costs, and orchestrate workflows — with direct CLI integration, GitHub sync, and real-time monitoring. | TypeScript | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/ngc-learnNGC-Learn: Neurobiological Systems Simulation and NeuroAI Design in Python | Python | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/nockchainNockchain protocol monorepo | Rust | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/nvmath-pythonNVIDIA Math Libraries for the Python Ecosystem | Cython | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/observer-patch-holographyOpen research on finite observer-consistency in physics: Lean-checked theorems and lemmas, reproducible simulations, explicit countermodels, and clearly tracked open physical bridges. | Python | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/ODEM | Python | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/oh-my-hermesAn opinionated workflow layer for building, shipping, and operating apps with Hermes Agent | — | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/oh-my-pi⌥ Coding agent with the IDE wired in | — | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/okn-registry | Python | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/OpenGauss | Python | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/osc-geo-h3grid-srvGeospatial Data Mesh: Index Service | Python | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/osc-geo-h3loader-cli | Python | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/PackageTemplate | — | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/paws-on-mcpA comprehensive Model Context Protocol (MCP) server implementing the latest specification. | Python | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/Personal_AI_InfrastructurePersonal AI Infrastructure for upgrading humans. | TypeScript | 1 | 0 | 2026-03-24 | fork |
| docxology/psw.vibelandia.sing13SING 13 — major singularity upgrade from SING 9. SS Vibelandia QUESTFEST 24×365 + NSPFRNP catalog. 13-channel fractal pathfinding spine. Lite edges; no Supabase. → ∞⁹ | JavaScript | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/pyDMBDDynamic Markov Blanket Discovery | Python | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/pydymaxPython Dymaxion Projection Module | Python | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/pyhgfPyHGF: A neural network library for predictive coding | — | 0 | 0 | 2026-11-05 | fork, recent |
| docxology/pymdpA Python implementation of active inference for Markov Decision Processes | Jupyter Notebook | 2 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/quantum-logical-frameworkquantum genesis constructive possibilist quantum logical synthesis | Python | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/RGMs | — | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/rsv-forecast-hubA repository run by the Centers for Disease Control and Prevention (CDC) to collect forecasts of incident respiratory syncytial virus (RSV) hospital admissions and emergency department visits. | — | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/RxEnvironments.jlReactive environments for self-learning agents | — | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/RxGP.jlSparse Gaussian process factor nodes for reactive message passing on factor graphs. | — | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/rxinfer-fastmcp-exampleA simple example to demonstrate how to call RxInfer from Python's code and return the result to an LLM with MCP protocolg2 | — | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/rxinfer-websiteRepository with content of RxInfer website for Hugo static site generator. | — | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/RxInfer.jlJulia package for automated Bayesian inference on a factor graph with reactive message passing | Jupyter Notebook | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/RxInferBenchmarks.jlA dashboard of rxinfer performance metrics over time | — | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/RxInferExamples.jlThis repository contains examples for RxInfer.jl | Julia | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/RxInferServerRESTful HTTP endpoints to RxInfer | Julia | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/School_of_TomorrowPutting a curriculum into practice. Inspired in part by The House of Tomorrow. | Python | 1 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/smartvilleA batteries-included testbed for deep learning based intrusion detection and mitigation. | Python | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/specificationTyped Context Protocol (tcxp): W3C Community Group Draft Report | — | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/spmSPM (Statistical Parametric Mapping) - Development Version | MATLAB | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/synthobs-egs-planck-scale-harmonicPlanck 1.6 ↔ Φ_EGS scale-harmonic bridge — clutch, singularity clamp, SynthOBS empirical suite (7/7) | JavaScript | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/systematics-v0.5Systematics v0.5 - Refactored version | Rust | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/thrmlThermodynamic Hypergraphical Model Library | Python | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/tiny-footprint-workstationTiny Footprint Workstation — AI Memory Efficiency Developer Kit (Local edition · Tiny Gateway) | HTML | 0 | 0 | 2026-11-05 | fork, recent |
| docxology/tritonDevelopment repository for the Triton language and compiler | Python | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/vibeship-spawner-skillsa skill directory for world-class specialized agents, in your terminal / IDE. more sophisticated than skills with just md files. and they're free. | JavaScript | 0 | 0 | 2026-11-04 | fork, archived, recent |
| docxology/yt-transcriberTUI app- Give it a YouTube URL and you get a transcription with possible speaker identification and optional summary or translation, all thanks to open-source AI tooling and my lack of enough free time to watch content-sparse YouTube videos | — | 0 | 0 | 2026-11-04 | fork, archived, recent |
Generated at 2026-11-08T20:58:55Z. Curated flags are derived from software.html / pages/SOFTWARE.md.