jvecfor: Fast K-Nearest Neighbor Search for Single-Cell Analysis16 days ago
Introduction | Function overview | Prerequisites and Setup | Java version | Package options | Custom JAR setup | Quick Start | Core Function: fastFindKNN() | Output structure | Algorithm choice: ANN vs. exact | Distance metrics | Euclidean (default) | Cosine | Dot-product (ANN only) | Skipping distance computation | HNSW-DiskANN Tuning | Parameter reference | High-recall configuration | Product Quantization (pq.subspaces) | Thread management | Graph Construction | Shared Nearest-Neighbor graph | K-Nearest Neighbor graph | Community detection | Full Single-Cell Workflow | Using a real SingleCellExperiment | Comparing with BiocNeighbors | Drop-in BiocNeighbors integration | Timing comparison | Troubleshooting | Common errors | Debugging with verbose mode | Checking the Java runtime | Using a safe wrapper | Session Information
