leiden

Turn any codebase, with its docs, SQL schemas, configs, and PDFs, into a queryable knowledge graph. A /graphify skill for Claude Code, Cursor, Codex, and Gemini CLI: local deterministic AST parsing, every edge explained, no vector store.

Implementation of the Louvain and Leiden community detection algorithms.

Clustering tool optimized for sparse distance matrices: ~16M elements with ~190M connections clustered in minutes.

MiCV is a python dash-based web-application that enables researchers to upload raw scRNA-seq data and perform filtering, analysis, and manual annotation.

An implementation of Hierarchical Incremental Tree Leiden Community Detection - https://arxiv.org/abs/2601.08554

Leiden community detection algorithm in graphs

Fast single-cell and spatial transcriptomics in Rust. 24x faster than Scanpy on compute-bound steps.

A LaTeX template for PhD theses

This research focuses on group detection and collaboration analysis among GitHub developers. It builds a commit-based collaboration network, where nodes represent developers and edges indicate joint contributions to repositories.

Scalable ensemble clustering on large networks

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WIKI: https://github.com/SqueezyDough/functional-programming/wiki/Functional-programming

Proof-of-concept migration from a relational database to MongoDB for "Jotun's Lair", a fictional MMO wiki. Covers REST API endpoint implementation in Python, advanced aggregation pipelines (outlier detection, percentiles, graph data) and schema evolution with design patterns.

Inspect a Microsoft GraphRAG index and the answers it gives. Judge the index, ask it a question, and follow every citation back to the record it came from. No server, no install, nothing uploaded.

FilWordNet web portal — a language resource for Filipino and Philippine English built from text analysis network science and natural language processing

SF 311 latent cluster atlas — photos → captions → embeddings → Leiden + UMAP, plus embedding-matched causal estimates of neighborhood-level response delays

Community detection evaluation across 7+ benchmark datasets with Louvain, Leiden, and Infomap

Bootstrap cluster stability for single-cell RNA-seq

Small scripts for various problems during the SP1 (Statistical Physics 1) course at Leiden University.

Turn any codebase, with its docs, SQL schemas, configs, and PDFs, into a queryable knowledge graph. A /graphify skill for Claude Code, Cursor, Codex, and Gemini CLI: local deterministic AST parsing, every edge explained, no vector store.